Nucleic acid and corresponding protein entitled 184P1E2 useful in treatment and detection of cancer

ABSTRACT

A novel gene (designated 184P1E2) and its encoded protein, and variants thereof, are described wherein 184P1E2 exhibits tissue specific expression in normal adult tissue, and is aberrantly expressed in the cancers listed in Table I. Consequently, 184P1E2 provides a diagnostic, prognostic, prophylactic and/or therapeutic target for cancer. The 184P1E2 gene or fragment thereof, or its encoded protein, or variants thereof, or a fragment thereof, can be used to elicit a humoral or cellular immune response; antibodies or T cells reactive with 184P1E2 can be used in active or passive immunization.

CROSS-REFERENCE TO RELATED APPLICATIONS

This application is a continuation of U.S. Ser. No. 11/368,284 filed Mar. 2, 2006, now U.S. Pat. No. 7,592,149, which is a division of U.S. Ser. No. 10/120,901 filed Apr. 9, 2002, now U.S. Pat. No. 7,135,549, issued Nov. 14, 2006, which claims priority from U.S. Ser. No. 60/282,739 filed Apr. 10, 2001, and U.S. Ser. No. 60/286,630, filed Apr. 25, 2001. The contents of these applications are hereby incorporated by reference herein in their entirety.

SUBMISSION ON COMPACT DISC

The content of the following submission on compact discs is incorporated herein by reference in its entirety: A compact disc copy of the Sequence Listing (COPY 1) (file name: 511582006701), date recorded: Apr. 5, 2006, size: 2,523,136 bytes ); a duplicate compact disc copy of the Sequence Listing (COPY 2) (file name: 511582006701), date recorded: Apr. 5, 2006, size: 2,523,136 bytes ); and a computer readable form copy of the Sequence Listing (CRF COPY) (file name: 511582006701), date recorded: Apr. 5, 2006, size: 2,523,136 bytes).

FIELD OF THE INVENTION

The invention described herein relates to a gene and its encoded protein, termed 184P1E2, expressed in certain cancers, and to diagnostic and therapeutic methods and compositions useful in the management of cancers that express 184P1E2.

BACKGROUND OF THE INVENTION

Cancer is the second leading cause of human death next to coronary disease. Worldwide, millions of people die from cancer every year. In the United States alone, as reported by the American Cancer Society, cancer causes the death of well over a half-million people annually, with over 1.2 million new cases diagnosed per year. While deaths from heart disease have been declining significantly, those resulting from cancer generally are on the rise. In the early part of the next century, cancer is predicted to become the leading cause of death.

Worldwide, several cancers stand out as the leading killers. In particular, carcinomas of the lung, prostate, breast, colon, pancreas, and ovary represent the primary causes of cancer death. These and virtually all other carcinomas share a common lethal feature. With very few exceptions, metastatic disease from a carcinoma is fatal. Moreover, even for those cancer patients who initially survive their primary cancers, common experience has shown that their lives are dramatically altered. Many cancer patients experience strong anxieties driven by the awareness of the potential for recurrence or treatment failure. Many cancer patients experience physical debilitations following treatment. Furthermore, many cancer patients experience a recurrence.

Worldwide, prostate cancer is the fourth most prevalent cancer in men. In North America and Northern Europe, it is by far the most common cancer in males and is the second leading cause of cancer death in men. In the United States alone, well over 30,000 men die annually of this disease—second only to lung cancer. Despite the magnitude of these figures, there is still no effective treatment for metastatic prostate cancer. Surgical prostatectomy, radiation therapy, hormone ablation therapy, surgical castration and chemotherapy continue to be the main treatment modalities. Unfortunately, these treatments are ineffective for many and are often associated with undesirable consequences.

On the diagnostic front, the lack of a prostate tumor marker that can accurately detect early-stage, localized tumors remains a significant limitation in the diagnosis and management of this disease. Although the serum prostate specific antigen (PSA) assay has been a very useful tool, however its specificity and general utility is widely regarded as lacking in several important respects.

Progress in identifying additional specific markers for prostate cancer has been improved by the generation of prostate cancer xenografts that can recapitulate different stages of the disease in mice. The LAPC (Los Angeles Prostate Cancer) xenografts are prostate cancer xenografts that have survived passage in severe combined immune deficient (SCID) mice and have exhibited the capacity to mimic the transition from androgen dependence to androgen independence (Klein et al., 1997, Nat. Med. 3:402). More recently identified prostate cancer markers include PCTA-1 (Su et al., 1996, Proc. Natl. Acad. Sci. USA 93: 7252), prostate-specific membrane (PSM) antigen (Pinto et al., Clin Cancer Res 1996 Sep. 2 (9): 1445-51), STEAP (Hubert, et al., Proc Natl Acad Sci USA. 1999 Dec. 7; 96(25): 14523-8) and prostate stem cell antigen (PSCA) (Reiter et al., 1998, Proc. Natl. Acad. Sci. USA 95: 1735).

While previously identified markers such as PSA, PSM, PCTA and PSCA have facilitated efforts to diagnose and treat prostate cancer, there is need for the identification of additional markers and therapeutic targets for prostate and related cancers in order to further improve diagnosis and therapy.

Renal cell carcinoma (RCC) accounts for approximately 3 percent of adult malignancies. Once adenomas reach a diameter of 2 to 3 cm, malignant potential exists. In the adult, the two principal malignant renal tumors are renal cell adenocarcinoma and transitional cell carcinoma of the renal pelvis or ureter. The incidence of renal cell adenocarcinoma is estimated at more than 29,000 cases in the United States, and more than 11,600 patients died of this disease in 1998. Transitional cell carcinoma is less frequent, with an incidence of approximately 500 cases per year in the United States.

Surgery has been the primary therapy for renal cell adenocarcinoma for many decades. Until recently, metastatic disease has been refractory to any systemic therapy. With recent developments in systemic therapies, particularly immunotherapies, metastatic renal cell carcinoma may be approached aggressively in appropriate patients with a possibility of durable responses. Nevertheless, there is a remaining need for effective therapies for these patients.

Of all new cases of cancer in the United States, bladder cancer represents approximately 5 percent in men (fifth most common neoplasm) and 3 percent in women (eighth most common neoplasm). The incidence is increasing slowly, concurrent with an increasing older population. In 1998, there was an estimated 54,500 cases, including 39,500 in men and 15,000 in women. The age-adjusted incidence in the United States is 32 per 100,000 for men and 8 per 100,000 in women. The historic male/female ratio of 3:1 may be decreasing related to smoking patterns in women. There were an estimated 11,000 deaths from bladder cancer in 1998 (7,800 in men and 3,900 in women). Bladder cancer incidence and mortality strongly increase with age and will be an increasing problem as the population becomes more elderly.

Most bladder cancers recur in the bladder. Bladder cancer is managed with a combination of transurethral resection of the bladder (TUR) and intravesical chemotherapy or immunotherapy. The multifocal and recurrent nature of bladder cancer points out the limitations of TUR. Most muscle-invasive cancers are not cured by TUR alone. Radical cystectomy and urinary diversion is the most effective means to eliminate the cancer but carry an undeniable impact on urinary and sexual function. There continues to be a significant need for treatment modalities that are beneficial for bladder cancer patients.

An estimated 130,200 cases of colorectal cancer occurred in 2000 in the United States, including 93,800 cases of colon cancer and 36,400 of rectal cancer. Colorectal cancers are the third most common cancers in men and women. Incidence rates declined significantly during 1992-1996 (−2.1% per year). Research suggests that these declines have been due to increased screening and polyp removal, preventing progression of polyps to invasive cancers. There were an estimated 56,300 deaths (47,700 from colon cancer, 8,600 from rectal cancer) in 2000, accounting for about 11% of all U.S. cancer deaths.

At present, surgery is the most common form of therapy for colorectal cancer, and for cancers that have not spread, it is frequently curative. Chemotherapy, or chemotherapy plus radiation, is given before or after surgery to most patients whose cancer has deeply perforated the bowel wall or has spread to the lymph nodes. A permanent colostomy (creation of an abdominal opening for elimination of body wastes) is occasionally needed for colon cancer and is infrequently required for rectal cancer. There continues to be a need for effective diagnostic and treatment modalities for colorectal cancer.

There were an estimated 164,100 new cases of lung and bronchial cancer in 2000, accounting for 14% of all U.S. cancer diagnoses. The incidence rate of lung and bronchial cancer is declining significantly in men, from a high of 86.5 per 100,000 in 1984 to 70.0 in 1996. In the 1990s, the rate of increase among women began to slow. In 1996, the incidence rate in women was 42.3 per 100,000.

Lung and bronchial cancer caused an estimated 156,900 deaths in 2000, accounting for 28% of all cancer deaths. During 1992-1996, mortality from lung cancer declined significantly among men (−1.7% per year) while rates for women were still significantly increasing (0.9% per year). Since 1987, more women have died each year of lung cancer than breast cancer, which, for over 40 years, was the major cause of cancer death in women. Decreasing lung cancer incidence and mortality rates most likely resulted from decreased smoking rates over the previous 30 years; however, decreasing smoking patterns among women lag behind those of men. Of concern, although the declines in adult tobacco use have slowed, tobacco use in youth is increasing again.

Treatment options for lung and bronchial cancer are determined by the type and stage of the cancer and include surgery, radiation therapy, and chemotherapy. For many localized cancers, surgery is usually the treatment of choice. Because the disease has usually spread by the time it is discovered, radiation therapy and chemotherapy are often needed in combination with surgery. Chemotherapy alone or combined with radiation is the treatment of choice for small cell lung cancer; on this regimen, a large percentage of patients experience remission, which in some cases is long lasting. There is however, an ongoing need for effective treatment and diagnostic approaches for lung and bronchial cancers.

An estimated 182,800 new invasive cases of breast cancer were expected to occur among women in the United States during 2000. Additionally, about 1,400 new cases of breast cancer were expected to be diagnosed in men in 2000. After increasing about 4% per year in the 1980s, breast cancer incidence rates in women have leveled off in the 1990s to about 110.6 cases per 100,000.

In the U.S. alone, there were an estimated 41,200 deaths (40,800 women, 400 men) in 2000 due to breast cancer. Breast cancer ranks second among cancer deaths in women. According to the most recent data, mortality rates declined significantly during 1992-1996 with the largest decreases in younger women, both white and black. These decreases were probably the result of earlier detection and improved treatment.

Taking into account the medical circumstances and the patient's preferences, treatment of breast cancer may involve lumpectomy (local removal of the tumor) and removal of the lymph nodes under the arm; mastectomy (surgical removal of the breast) and removal of the lymph nodes under the arm; radiation therapy; chemotherapy; or hormone therapy. Often, two or more methods are used in combination. Numerous studies have shown that, for early stage disease, long-term survival rates after lumpectomy plus radiotherapy are similar to survival rates after modified radical mastectomy. Significant advances in reconstruction techniques provide several options for breast reconstruction after mastectomy. Recently, such reconstruction has been done at the same time as the mastectomy.

Local excision of ductal carcinoma in situ (DCIS) with adequate amounts of surrounding normal breast tissue may prevent the local recurrence of the DCIS. Radiation to the breast and/or tamoxifen may reduce the chance of DCIS occurring in the remaining breast tissue. This is important because DCIS, if left untreated, may develop into invasive breast cancer. Nevertheless, there are serious side effects or sequelae to these treatments. There is, therefore, a need for efficacious breast cancer treatments.

There were an estimated 23,100 new cases of ovarian cancer in the United States in 2000. It accounts for 4% of all cancers among women and ranks second among gynecologic cancers. During 1992-1996, ovarian cancer incidence rates were significantly declining. Consequent to ovarian cancer, there were an estimated 14,000 deaths in 2000. Ovarian cancer causes more deaths than any other cancer of the female reproductive system.

Surgery, radiation therapy, and chemotherapy are treatment options for ovarian cancer. Surgery usually includes the removal of one or both ovaries, the fallopian tubes (salpingo-oophorectomy), and the uterus (hysterectomy). In some very early tumors, only the involved ovary will be removed, especially in young women who wish to have children. In advanced disease, an attempt is made to remove all intra-abdominal disease to enhance the effect of chemotherapy. There continues to be an important need for effective treatment options for ovarian cancer.

There were an estimated 28,300 new cases of pancreatic cancer in the United States in 2000. Over the past 20 years, rates of pancreatic cancer have declined in men. Rates among women have remained approximately constant but may be beginning to decline. Pancreatic cancer caused an estimated 28,200 deaths in 2000 in the United States. Over the past 20 years, there has been a slight but significant decrease in mortality rates among men (about −0.9% per year) while rates have increased slightly among women.

Surgery, radiation therapy, and chemotherapy are treatment options for pancreatic cancer. These treatment options can extend survival and/or relieve symptoms in many patients but are not likely to produce a cure for most. There is a significant need for additional therapeutic and diagnostic options for pancreatic cancer.

SUMMARY OF THE INVENTION

The present invention relates to a gene, designated 184P1E2, that has now been found to be over-expressed in the cancer(s) listed in Table I. Northern blot expression analysis of 184P1E2 gene expression in normal tissues shows a restricted expression pattern in adult tissues. The nucleotide (FIG. 2) and amino acid (FIG. 2, and FIG. 3) sequences of 184P1E2 are provided. The tissue-related profile of 184P1E2 in normal adult tissues, combined with the over-expression observed in the tissues listed in Table I, shows that 184P1E2 is aberrantly over-expressed in at least some cancers, and thus serves as a useful diagnostic, prophylactic, prognostic, and/or therapeutic target for cancers of the tissue(s) such as those listed in Table I.

The invention provides polynucleotides corresponding or complementary to all or part of the 184P1E2 genes, mRNAs, and/or coding sequences, preferably in isolated form, including polynucleotides encoding 184P1E2-related proteins and fragments of 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, or more than 25 contiguous amino acids; at least 30, 35, 40, 45, 50, 55, 60, 65, 70, 80, 85, 90, 95, 100 or more than 100 contiguous amino acids of a 184P1E2-related protein, as well as the peptides/proteins themselves; DNA, RNA, DNA/RNA hybrids, and related molecules, polynucleotides or oligonucleotides complementary or having at least a 90% homology to the 184P1E2 genes or mRNA sequences or parts thereof, and polynucleotides or oligonucleotides that hybridize to the 184P1E2 genes, mRNAs, or to 184P1E2-encoding polynucleotides. Also provided are means for isolating cDNAs and the genes encoding 184P1E2. Recombinant DNA molecules containing 184P1E2 polynucleotides, cells transformed or transduced with such molecules, and host-vector systems for the expression of 184P1E2 gene products are also provided. The invention further provides antibodies that bind to 184P1E2 proteins and polypeptide fragments thereof, including polyclonal and monoclonal antibodies, murine and other mammalian antibodies, chimeric antibodies, humanized and fully human antibodies, and antibodies labeled with a detectable marker or therapeutic agent. In certain embodiments there is a proviso that the entire nucleic acid sequence of FIG. 2 is not encoded and/or the entire amino acid sequence of FIG. 2 is not prepared. In certain embodiments, the entire nucleic acid sequence of FIG. 2 is encoded and/or the entire amino acid sequence of FIG. 2 is prepared, either of which are in respective human unit dose forms.

The invention further provides methods for detecting the presence and status of 184P1E2 polynucleotides and proteins in various biological samples, as well as methods for identifying cells that express 184P1E2. A typical embodiment of this invention provides methods for monitoring 184P1E2 gene products in a tissue or hematology sample having or suspected of having some form of growth dysregulation such as cancer.

The invention further provides various immunogenic or therapeutic compositions and strategies for treating cancers that express 184P1E2 such as cancers of tissues listed in Table I, including therapies aimed at inhibiting the transcription, translation, processing or function of 184P1E2 as well as cancer vaccines. In one aspect, the invention provides compositions, and methods comprising them, for treating a cancer that expresses 184P1E2 in a human subject wherein the composition comprises a carrier suitable for human use and a human unit dose of one or more than one agent that inhibits the production or function of 184P1E2. Preferably, the carrier is a uniquely human carrier. In another aspect of the invention, the agent is a moiety that is immunoreactive with 184P1E2 protein. Non-limiting examples of such moieties include, but are not limited to, antibodies (such as single chain, monoclonal, polyclonal, humanized, chimeric, or human antibodies), functional equivalents thereof (whether naturally occurring or synthetic), and combinations thereof. The antibodies can be conjugated to a diagnostic or therapeutic moiety. In another aspect, the agent is a small molecule as defined herein.

In another aspect, the agent comprises one or more than one peptide which comprises a cytotoxic T lymphocyte (CTL) epitope that binds an HLA class I molecule in a human to elicit a CTL response to 184P1E2 and/or one or more than one peptide which comprises a helper T lymphocyte (HTL) epitope which binds an HLA class II molecule in a human to elicit an HTL response. The peptides of the invention may be on the same or on one or more separate polypeptide molecules. In a further aspect of the invention, the agent comprises one or more than one nucleic acid molecule that expresses one or more than one of the CTL or HTL response stimulating peptides as described above. In yet another aspect of the invention, the one or more than one nucleic acid molecule may express a moiety that is immunologically reactive with 184P1E2 as described above. The one or more than one nucleic acid molecule may also be, or encodes, a molecule that inhibits production of 184P1E2. Non-limiting examples of such molecules include, but are not limited to, those complementary to a nucleotide sequence essential for production of 184P1E2 (e.g. antisense sequences or molecules that form a triple helix with a nucleotide double helix essential for 184P1E2 production) or a ribozyme effective to lyse 184P1E2 mRNA.

Note that to determine the starting position of any peptide set forth in Tables V-XVII and XXII to LI (collectively HLA Peptide Tables) respective to its parental protein, e.g., variant 1, variant 2, etc., reference is made to three factors: the particular variant, the length of the peptide in an HLA Peptide Table, and the Search Peptides in Table LII. Generally, a unique Search Peptide is used to obtain HLA peptides of a particular for a particular variant. The position of each Search Peptide relative to its respective parent molecule is listed in Table LII. Accordingly, if a Search Peptide begins at position “X”, one must add the value “X−1” to each position in Tables V-XVIII and XXII to LI to obtain the actual position of the HLA peptides in their parental molecule. For example, if a particular Search Peptide begins at position 150 of its parental molecule, one must add 150−1, i.e., 149 to each HLA peptide amino acid position to calculate the position of that amino acid in the parent molecule.

One embodiment of the invention comprises an HLA peptide, that occurs at least twice in Tables V-XVIII and XXI to LI collectively, or an oligonucleotide that encodes the HLA peptide. Another embodiment of the invention comprises an HLA peptide that occurs at least once in Tables V-XVIII and at least once in tables XXII to LI, or an oligonucleotide that encodes the HLA peptide.

Another embodiment of the invention is antibody epitopes which comprise a peptide regions, or an oligonucleotide encoding the peptide region, that has one two, three, four, or five of the following characteristics:

i) a peptide region of at least 5 amino acids of a particular peptide of FIG. 3, in any whole number increment up to the full length of that protein in FIG. 3, that includes an amino acid position having a value equal to or greater than 0.5, 0.6, 0.7, 0.8, 0.9, or having a value equal to 1.0, in the Hydrophilicity profile of FIG. 5;

ii) a peptide region of at least 5 amino acids of a particular peptide of FIG. 3, in any whole number increment up to the full length of that protein in FIG. 3, that includes an amino acid position having a value equal to or less than 0.5, 0.4, 0.3, 0.2, 0.1, or having a value equal to 0.0, in the Hydropathicity profile of FIG. 6;

iii) a peptide region of at least 5 amino acids of a particular peptide of FIG. 3, in any whole number increment up to the full length of that protein in FIG. 3, that includes an amino acid position having a value equal to or greater than 0.5, 0.6, 0.7, 0.8, 0.9, or having a value equal to 1.0, in the Percent Accessible Residues profile of FIG. 7;

iv) a peptide region of at least 5 amino acids of a particular peptide of FIG. 3, in any whole number increment up to the full length of that protein in FIG. 3, that includes an amino acid position having a value equal to or greater than 0.5, 0.6, 0.7, 0.8, 0.9, or having a value equal to 1.0, in the Average Flexibility profile of FIG. 8; or

v) a peptide region of at least 5 amino acids of a particular peptide of FIG. 3, in any whole number increment up to the full length of that protein in FIG. 3, that includes an amino acid position having a value equal to or greater than 0.5, 0.6, 0.7, 0.8, 0.9, or having a value equal to 1.0, in the Beta-turn profile of FIG. 9.

BRIEF DESCRIPTION OF THE FIGURES

FIG. 1. The 184P1E2 SSH sequence (SEQ ID NO.: 1) of 132 nucleotides.

FIG. 2. The cDNA (SEQ ID. NO.: 2) and amino acid sequence (SEQ ID. NO.: 3) of 184P1E2 variant 1 (also called “184P1E2 v.1” or “184P1E2 variant 1”) is shown in FIG. 2A. The start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 4) and amino acid sequence (SEQ ID. NO.: 5) of 184P1E2 variant 2 (also called “184P1E2 v.2”) is shown in FIG. 2B. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 6) and amino acid sequence (SEQ ID. NO.: 7) of 184P1E2 variant 3 (also called “184P1E2 v.3”) is shown in FIG. 2C. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 8) and amino acid sequence (SEQ ID. NO.: 9) of 184P1E2 variant 4 (also called “184P1E2 v.4”) is shown in FIG. 2D. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 10) and amino acid sequence (SEQ ID. NO.: 11) of 184P1E2 variant 5 (also called “184P1E2 v.5”) is shown in FIG. 2E. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 12) and amino acid sequence (SEQ ID. NO.: 13) of 184P1E2 variant 6 (also called “184P1E2 v.6”) is shown in FIG. 2F. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 14) and amino acid sequence (SEQ ID. NO.: 15) of 184P1E2 variant 7 (also called “184P1E2 v.7”) is shown in FIG. 2G. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 16) and amino acid sequence (SEQ ID. NO.: 17) of 184P1E2 variant 8 (also called “184P1E2 v.8”) is shown in FIG. 2H. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 18) and amino acid sequence (SEQ ID. NO.: 19) of 184P1E2 variant 9 (also called “184P1E2 v.9”) is shown in FIG. 2I. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. The cDNA (SEQ ID. NO.: 20) and amino acid sequence (SEQ ID. NO.: 21) of 184P1E2 variant 10 (also called “184P1E2 v.10”) is shown in FIG. 2J. The codon for the start methionine is underlined. The open reading frame extends from nucleic acid 42-2036 including the stop codon. As used herein, a reference to 184P1E2 includes all variants thereof, including those shown in FIGS. 10 and 12.

FIG. 3. Amino acid sequence of 184P1E2 v.1 (SEQ ID. NO.: 3) is shown in FIG. 3A; it has 664 amino acids. The amino acid sequence of 184P1E2 v.2 (SEQ ID. NO.: 4) is shown in FIG. 3B; it has 664 amino acids. The amino acid sequence of 184P1E2 v.3 (SEQ ID. NO.: 5) is shown in FIG. 3C; it has 664 amino acids. As used herein, a reference to 184P1E2 includes all variants thereof, including those shown in FIG. 11.

FIG. 4. The nucleic acid sequence alignment of 184P1E2 v.1 (SEQ ID NO.: 2) with human peptidylarginine deiminase type III (SEQ ID NO.: 22) is shown in FIG. 4A. The nucleic acid differences are underlined. The amino acid sequence alignment of 184P1E2 v.1 (SEQ ID NO.: 3) with human peptidylarginine deiminase type III (SEQ ID NO.: 23) is shown in FIG. 4B. The amino acid variation at position 480 is underlined. The amino acid sequence alignment of 184P1E2 v.1 (SEQ ID NO.: 3) with mouse peptidylarginine deiminase type III (SEQ ID NO.: 24) is shown in FIG. 4C. The amino acid sequence alignment of 184P1E2 v.1 (SEQ ID NO.: 3) with Rat deiminase type III (SEQ ID NO.: 25) is shown in FIG. 4D.

FIG. 5. Hydrophilicity amino acid profile of 184P1E2 variant 1, determined by computer algorithm sequence analysis using the method of Hopp and Woods (Hopp T. P., Woods K. R., 1981. Proc. Natl. Acad. Sci. U.S.A. 78:3824-3828) accessed on the Protscale website through the ExPasy molecular biology server.

FIG. 6. Hydropathicity amino acid profile of 184P1E2 variant 1, determined by computer algorithm sequence analysis using the method of Kyte and Doolittle (Kyte J., Doolittle R. F., 1982. J. Mol. Biol. 157:105-132) accessed on the ProtScale website through the ExPasy molecular biology server.

FIG. 7. Percent accessible residues amino acid profile of 184P1E2 variant 1, determined by computer algorithm sequence analysis using the method of Janin (Janin J., 1979 Nature 277:491-492) accessed on the ProtScale website through the ExPasy molecular biology server.

FIG. 8. Average flexibility amino acid profile of 184P1E2 variant 1, determined by computer algorithm sequence analysis using the method of Bhaskaran and Ponnuswamy (Bhaskaran R., and Ponnuswamy P. K., 1988. Int. J. Pept. Protein Res. 32:242-255) accessed on the ProtScale website through the ExPasy molecular biology server.

FIG. 9. Beta-turn amino acid profile of 184P1E2 variant 1, determined by computer algorithm sequence analysis using the method of Deleage and Roux (Deleage, G., Roux B. 1987 Protein Engineering 1:289-294) accessed on the ProtScale website through the ExPasy molecular biology server.

FIG. 10. Schematic display of nucleotide variants of 184P1E2. Variants 184P1E2 v.2 through v.10 are variants with single nucleotide variation. The black boxes show the same sequence as 184P1E2 v.1. The numbers correspond to those of 184P1E2 v.1. Single Nucleotide Polymorphisms (also called “SNPs”) are indicated above the boxes.

FIG. 11. Schematic display of protein variants of 184P1E2. Nucleotide variants 184P1E2 v.1, v.2 and v.3 in FIG. 10 code for protein variants 184P1E2 v.1, v.2 and v.3, respectively. Variants 184P1E2 v.4 through v.10 code the same protein as variant 184P1E2 v.1. Protein variants 184P1E2 v.2 and v.3 are variants with single amino acid variations. The black boxes show the same sequence as 184P1E2 v.1. The numbers correspond to those of 184P1E2 v.1. Single amino acid differences are indicated above the box.

FIG. 12. The exon composition of the original transcript, designated as 184P1E2 v.1.

FIG. 13. Secondary structure prediction for 184P1E2 (SEQ ID NO.: 3). The secondary structure of 184P1E2 variant 1 was predicted using the HNN—Hierarchical Neural Network method (Guermeur, 1997), accessed from the ExPasy molecular biology server. This method predicts the presence and location of alpha helices, extended strands, and random coils from the primary protein sequence. The percent of the protein in a given secondary structure is also listed.

FIG. 14. Expression of 184P1E2 by RT-PCR. First strand cDNA was prepared from vital pool 1 (liver, lung and kidney), vital pool 2 (pancreas, colon and stomach), bladder cancer pool, kidney cancer pool, lung cancer pool, and cancer metastasis pool. Normalization was performed by PCR using primers to actin and GAPDH. Semi-quantitative PCR, using primers to 184P1E2, was performed at 26 and 30 cycles of amplification. Results show strong expression of 184P1E2 in bladder cancer pool. Expression of 184P1E2 is also detected in kidney cancer pool, lung cancer pool and cancer metastasis pool, but not in vital pool 1 and vital pool 2.

FIG. 15. Expression of 184P1E2 in normal tissues. Two multiple tissue northern blots (Clontech) both with 2 ug of mRNA/lane were probed with the 184P1E2 sequence. Size standards in kilobases (kb) are indicated on the side. Results show absence of expression of 184P1E2 in all 16 normal tissues tested.

FIG. 16. Expression of 184P1E2 in Patient Cancer Specimens and Normal Tissues. RNA was extracted from a pool of three bladder cancers (BCP), as well as from normal prostate (NP), normal bladder (NB), normal kidney (NK), normal colon (NC), normal lung (NL), normal breast (NBr) and normal ovary (NO). Northern blot with 10 μg of total RNAAane was probed with 184P1E2 sequence. Size standards in kilobases (kb) are indicated on the side. An approximately 4.5 kb 184P1E2 transcript was detected in the bladder cancer pool but not in the normal tissues tested.

FIG. 17. Expression of 184P1E2 in bladder cancer patient tissues. RNA was extracted from normal bladder (NB), bladder cancer cell lines (CL; UM-UC-3, J82, SCaBER), bladder cancer patient tumors (T) and their normal adjacent tissues (N). Northern blots with 10 ug of total RNA were probed with the 184P1E2 sequence. Size standards in kilobases are indicated on the side. Results show strong expression of 184P1E2 in patient bladder cancer tissues.

FIG. 18. Expression of 184P1E2 in lung cancer patient tissues. RNA was extracted from lung cancer cell lines (CL) (CALU-1, A427, NCI-H82, NCI-146), normal lung (N), lung cancer patient tumors (T) and their normal adjacent tissues (Nat). Northern blots with 10 ug of total RNA were probed with the 184P1E2 sequence. Size standards in kilobases are on the side. Results show strong expression of 184P1E2 in patient lung cancer tissues, but not in normal lung. A lower molecular weight transcript was also detected in the two cell lines CALU-1 and NCI-146.

DETAILED DESCRIPTION OF THE INVENTION

Outline of Sections

I.) Definitions

II.) 184P1E2 Polynucleotides

II.A.) Uses of 184P1E2 Polynucleotides

II.A.1.) Monitoring of Genetic Abnormalities

II.A.2.) Antisense Embodiments

II.A.3.) Primers and Primer Pairs

II.A.4.) Isolation of 184P1E2-Encoding Nucleic Acid Molecules

II.A.5.) Recombinant Nucleic Acid Molecules and Host-Vector Systems

III.) 184P1E2-related Proteins

III.A.) Motif-bearing Protein Embodiments

III.B.) Expression of 184P1E2-related Proteins

III.C.) Modifications of 184P1E2-related Proteins

III.D.) Uses of 184P1E2-related Proteins

IV.) 184P1E2 Antibodies

V.) 184P1E2 Cellular Immune Responses

VI.) 184P1E2 Transgenic Animals

VII.) Methods for the Detection of 184P1E2

VIII.) Methods for Monitoring the Status of 184P1E2-related Genes and Their Products

IX.) Identification of Molecules That Interact With 184P1E2

X.) Therapeutic Methods and Compositions

X.A.) Anti-Cancer Vaccines

X.B.) 184P1E2 as a Target for Antibody-Based Therapy

X.C.) 184P1E2 as a Target for Cellular Immune Responses

X.C.1. Minigene Vaccines

X.C.2. Combinations of CTL Peptides with Helper Peptides

X.C.3. Combinations of CTL Peptides with T Cell Priming Agents

X.C.4. Vaccine Compositions Comprising DC Pulsed with CTL and/or HTL Peptides

X.D.) Adoptive Immunotherapy

X.E.) Administration of Vaccines for Therapeutic or Prophylactic Purposes

XI.) Diagnostic and Prognostic Embodiments of 184P1E2.

XII.) Inhibition of 184P1E2 Protein Function

XII.A.) Inhibition of 184P1E2 With Intracellular Antibodies

XII.B.) Inhibition of 184P1E2 with Recombinant Proteins

XII.C.) Inhibition of 184P1E2 Transcription or Translation

XII.D.) General Considerations for Therapeutic Strategies

XIII.) KITS

I.) Definitions:

Unless otherwise defined, all terms of art, notations and other scientific terms or terminology used herein are intended to have the meanings commonly understood by those of skill in the art to which this invention pertains. In some cases, terms with commonly understood meanings are defined herein for clarity and/or for ready reference, and the inclusion of such definitions herein should not necessarily be construed to represent a substantial difference over what is generally understood in the art. Many of the techniques and procedures described or referenced herein are well understood and commonly employed using conventional methodology by those skilled in the art, such as, for example, the widely utilized molecular cloning methodologies described in Sambrook et al., Molecular Cloning: A Laboratory Manual 2nd. edition (1989) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. As appropriate, procedures involving the use of commercially available kits and reagents are generally carried out in accordance with manufacturer defined protocols and/or parameters unless otherwise noted.

The terms “advanced prostate cancer”, “locally advanced prostate cancer”, “advanced disease” and “locally advanced disease” mean prostate cancers that have extended through the prostate capsule, and are meant to include stage C disease under the American Urological Association (AUA) system, stage C1-C2 disease under the Whitmore-Jewett system, and stage T3-T4 and N+ disease under the TNM (tumor, node, metastasis) system. In general, surgery is not recommended for patients with locally advanced disease, and these patients have substantially less favorable outcomes compared to patients having clinically localized (organ-confined) prostate cancer. Locally advanced disease is clinically identified by palpable evidence of induration beyond the lateral border of the prostate, or asymmetry or induration above the prostate base. Locally advanced prostate cancer is presently diagnosed pathologically following radical prostatectomy if the tumor invades or penetrates the prostatic capsule, extends into the surgical margin, or invades the seminal vesicles.

“Altering the native glycosylation pattern” is intended for purposes herein to mean deleting one or more carbohydrate moieties found in native sequence 184P1E2 (either by removing the underlying glycosylation site or by deleting the glycosylation by chemical and/or enzymatic means), and/or adding one or more glycosylation sites that are not present in the native sequence 184P1E2. In addition, the phrase includes qualitative changes in the glycosylation of the native proteins, involving a change in the nature and proportions of the various carbohydrate moieties present.

The term “analog” refers to a molecule which is structurally similar or shares similar or corresponding attributes with another molecule (e.g. a 184P1E2-related protein). For example an analog of a 184P1E2 protein can be specifically bound by an antibody or T cell that specifically binds to 184P1E2.

The term “antibody” is used in the broadest sense. Therefore an “antibody” can be naturally occurring or man-made such as monoclonal antibodies produced by conventional hybridoma technology. Anti-184P1E2 antibodies comprise monoclonal and polyclonal antibodies as well as fragments containing the antigen-binding domain and/or one or more complementarity determining regions of these antibodies.

An “antibody fragment” is defined as at least a portion of the variable region of the immunoglobulin molecule that binds to its target, i.e., the antigen-binding region. In one embodiment it specifically covers single anti-184P1E2 antibodies and clones thereof (including agonist, antagonist and neutralizing antibodies) and anti-184P1E2 antibody compositions with polyepitopic specificity.

The term “codon optimized sequences” refers to nucleotide sequences that have been optimized for a particular host species by replacing any codons having a usage frequency of less than about 20%. Nucleotide sequences that have been optimized for expression in a given host species by elimination of spurious polyadenylation sequences, elimination of exon/intron splicing signals, elimination of transposon-like repeats and/or optimization of GC content in addition to codon optimization are referred to herein as an “expression enhanced sequences.”

The term “cytotoxic agent” refers to a substance that inhibits or prevents the expression activity of cells, function of cells and/or causes destruction of cells. The term is intended to include radioactive isotopes chemotherapeutic agents, and toxins such as small molecule toxins or enzymatically active toxins of bacterial, fungal, plant or animal origin, including fragments and/or variants thereof. Examples of cytotoxic agents include, but are not limited to maytansinoids, yttrium, bismuth, ricin, ricin A-chain, doxorubicin, daunorubicin, taxol, ethidium bromide, mitomycin, etoposide, tenoposide, vincristine, vinblastine, colchicine, dihydroxy anthracin dione, actinomycin, diphtheria toxin, Pseudomonas exotoxin (PE) A, PE40, abrin, abrin A chain, modeccin A chain, alpha-sarcin, gelonin, mitogellin, retstrictocin, phenomycin, enomycin, curicin, crotin, calicheamicin, sapaonaria officinalis inhibitor, and glucocorticoid and other chemotherapeutic agents, as well as radioisotopes such as At²¹¹, I¹³¹, I¹²⁵, Y⁹⁰, Re¹⁸⁶, Re¹⁸⁸, Sm¹⁵³, Bi²¹², P³² and radioactive isotopes of Lu. Antibodies may also be conjugated to an anti-cancer pro-drug activating enzyme capable of converting the pro-drug to its active form.

The term “homolog” refers to a molecule which exhibits homology to another molecule, by for example, having sequences of chemical residues that are the same or similar at corresponding positions.

“Human Leukocyte Antigen” or “HLA” is a human class I or class II Major Histocompatibility Complex (MHC) protein (see, e.g., Stites, et al., IMMUNOLOGY, 8^(TH) ED., Lange Publishing, Los Altos, Calif. (1994).

The terms “hybridize”, “hybridizing”, “hybridizes” and the like, used in the context of polynucleotides, are meant to refer to conventional hybridization conditions, preferably such as hybridization in 50% formamide/6×SSC/0.1% SDS/100 μg/ml ssDNA, in which temperatures for hybridization are above 37 degrees C. and temperatures for washing in 0.1×SSC/0.1% SDS are above 55 degrees C.

The phrases “isolated” or “biologically pure” refer to material which is substantially or essentially free from components which normally accompany the material as it is found in its native state. Thus, isolated peptides in accordance with the invention preferably do not contain materials normally associated with the peptides in their in situ environment. For example, a polynucleotide is said to be “isolated” when it is substantially separated from contaminant polynucleotides that correspond or are complementary to genes other than the 184P1E2 genes or that encode polypeptides other than 184P1E2 gene product or fragments thereof. A skilled artisan can readily employ nucleic acid isolation procedures to obtain an isolated 184P1E2 polynucleotide. A protein is said to be “isolated,” for example, when physical, mechanical or chemical methods are employed to remove the 184P1E2 proteins from cellular constituents that are normally associated with the protein. A skilled artisan can readily employ standard purification methods to obtain an isolated 184P1E2 protein. Alternatively, an isolated protein can be prepared by chemical means.

The term “mammal” refers to any organism classified as a mammal, including mice, rats, rabbits, dogs, cats, cows, horses and humans. In one embodiment of the invention, the mammal is a mouse. In another embodiment of the invention, the mammal is a human.

The terms “metastatic prostate cancer” and “metastatic disease” mean prostate cancers that have spread to regional lymph nodes or to distant sites, and are meant to include stage D disease under the AUA system and stage T×N×M+under the TNM system. As is the case with locally advanced prostate cancer, surgery is generally not indicated for patients with metastatic disease, and hormonal (androgen ablation) therapy is a preferred treatment modality. Patients with metastatic prostate cancer eventually develop an androgen-refractory state within 12 to 18 months of treatment initiation. Approximately half of these androgen-refractory patients die within 6 months after developing that status. The most common site for prostate cancer metastasis is bone. Prostate cancer bone metastases are often osteoblastic rather than osteolytic (i.e., resulting in net bone formation). Bone metastases are found most frequently in the spine, followed by the femur, pelvis, rib cage, skull and humerus. Other common sites for metastasis include lymph nodes, lung, liver and brain. Metastatic prostate cancer is typically diagnosed by open or laparoscopic pelvic lymphadenectomy, whole body radionuclide scans, skeletal radiography, and/or bone lesion biopsy.

The term “monoclonal antibody” refers to an antibody obtained from a population of substantially homogeneous antibodies, i.e., the antibodies comprising the population are identical except for possible naturally occurring mutations that are present in minor amounts.

A “motif”, as in biological motif of a 184P1E2-related protein, refers to any pattern of amino acids forming part of the primary sequence of a protein, that is associated with a particular function (e.g. protein-protein interaction, protein-DNA interaction, etc) or modification (e.g. that is phosphorylated, glycosylated or amidated), or localization (e.g. secretory sequence, nuclear localization sequence, etc.) or a sequence that is correlated with being immunogenic, either humorally or cellularly. A motif can be either contiguous or capable of being aligned to certain positions that are generally correlated with a certain function or property. In the context of HLA motifs, “motif” refers to the pattern of residues in a peptide of defined length, usually a peptide of from about 8 to about 13 amino acids for a class I HLA motif and from about 6 to about 25 amino acids for a class II HLA motif, which is recognized by a particular HLA molecule. Peptide motifs for HLA binding are typically different for each protein encoded by each human HLA allele and differ in the pattern of the primary and secondary anchor residues.

A “pharmaceutical excipient” comprises a material such as an adjuvant, a carrier, pH-adjusting and buffering agents, tonicity adjusting agents, wetting agents, preservative, and the like.

“Pharmaceutically acceptable” refers to a non-toxic, inert, and/or composition that is physiologically compatible with humans or other mammals.

The term “polynucleotide” means a polymeric form of nucleotides of at least 10 bases or base pairs in length, either ribonucleotides or deoxynucleotides or a modified form of either type of nucleotide, and is meant to include single and double stranded forms of DNA and/or RNA. In the art, this term if often used interchangeably with “oligonucleotide”. A polynucleotide can comprise a nucleotide sequence disclosed herein wherein thymidine (T), as shown for example in FIG. 2, can also be uracil (U); this definition pertains to the differences between the chemical structures of DNA and RNA, in particular the observation that one of the four major bases in RNA is uracil (U) instead of thymidine (T).

The term “polypeptide” means a polymer of at least about 4, 5, 6, 7, or 8 amino acids. Throughout the specification, standard three letter or single letter designations for amino acids are used. In the art, this term is often used interchangeably with “peptide” or “protein”.

An HLA “primary anchor residue” is an amino acid at a specific position along a peptide sequence which is understood to provide a contact point between the immunogenic peptide and the HLA molecule. One to three, usually two, primary anchor residues within a peptide of defined length generally defines a “motif” for an immunogenic peptide. These residues are understood to fit in close contact with peptide binding groove of an HLA molecule, with their side chains buried in specific pockets of the binding groove. In one embodiment, for example, the primary anchor residues for an HLA class I molecule are located at position 2 (from the amino terminal position) and at the carboxyl terminal position of a 8, 9, 10, 11, or 12 residue peptide epitope in accordance with the invention. In another embodiment, for example, the primary anchor residues of a peptide that will bind an HLA class II molecule are spaced relative to each other, rather than to the termini of a peptide, where the peptide is generally of at least 9 amino acids in length. The primary anchor positions for each motif and supermotif are set forth in Table IV. For example, analog peptides can be created by altering the presence or absence of particular residues in the primary and/or secondary anchor positions shown in Table IV. Such analogs are used to modulate the binding affinity and/or population coverage of a peptide comprising a particular HLA motif or supermotif.

A “recombinant” DNA or RNA molecule is a DNA or RNA molecule that has been subjected to molecular manipulation in vitro.

Non-limiting examples of small molecules include compounds that bind or interact with 184P1E2, ligands including hormones, neuropeptides, chemokines, odorants, phospholipids, and functional equivalents thereof that bind and preferably inhibit 184P1E2 protein function. Such non-limiting small molecules preferably have a molecular weight of less than about 10 kDa, more preferably below about 9, about 8, about 7, about 6, about 5 or about 4 kDa. In certain embodiments, small molecules physically associate with, or bind, 184P1E2 protein; are not found in naturally occurring metabolic pathways; and/or are more soluble in aqueous than non-aqueous solutions

“Stringency” of hybridization reactions is readily determinable by one of ordinary skill in the art, and generally is an empirical calculation dependent upon probe length, washing temperature, and salt concentration. In general, longer probes require higher temperatures for proper annealing, while shorter probes need lower temperatures. Hybridization generally depends on the ability of denatured nucleic acid sequences to reanneal when complementary strands are present in an environment below their melting temperature. The higher the degree of desired homology between the probe and hybridizable sequence, the higher the relative temperature that can be used. As a result, it follows that higher relative temperatures would tend to make the reaction conditions more stringent, while lower temperatures less so. For additional details and explanation of stringency of hybridization reactions, see Ausubel et al., Current Protocols in Molecular Biology, Wiley Interscience Publishers, (1995).

“Stringent conditions” or “high stringency conditions”, as defined herein, are identified by, but not limited to, those that: (1) employ low ionic strength and high temperature for washing, for example 0.015 M sodium chloride/0.0015 M sodium citrate/0.1% sodium dodecyl sulfate at 50° C.; (2) employ during hybridization a denaturing agent, such as formamide, for example, 50% (v/v) formamide with 0.1% bovine serum albumin/0.1% Ficoll/0.1% polyvinylpyrrolidone/50 mM sodium phosphate buffer at pH 6.5 with 750 mM sodium chloride, 75 mM sodium citrate at 42° C.; or (3) employ 50% formamide, 5×SSC (0.75 M NaCl, 0.075 M sodium citrate), 50 mM sodium phosphate (pH 6.8), 0.1% sodium pyrophosphate, 5×Denhardt's solution, sonicated salmon sperm DNA (50 μg/ml), 0.1% SDS, and 10% dextran sulfate at 42° C., with washes at 42° C. in 0.2×SSC (sodium chloride/sodium. citrate) and 50% formamide at 55° C., followed by a high-stringency wash consisting of 0.1×SSC containing EDTA at 55° C. “Moderately stringent conditions” are described by, but not limited to, those in Sambrook et al., Molecular Cloning: A Laboratory Manual, New York: Cold Spring Harbor Press, 1989, and include the use of washing solution and hybridization conditions (e.g., temperature, ionic strength and % SDS) less stringent than those described above. An example of moderately stringent conditions is overnight incubation at 37° C. in a solution comprising: 20% formamide, 5×SSC (150 mM NaCl, 15 mM trisodium citrate), 50 mM sodium phosphate (pH 7.6), 5×Denhardt's solution, 10% dextran sulfate, and 20 mg/mL denatured sheared salmon sperm DNA, followed by washing the filters in 1×SSC at about 37-50° C. The skilled artisan will recognize how to adjust the temperature, ionic strength, etc. as necessary to accommodate factors such as probe length and the like.

An HLA “supermotif” is a peptide binding specificity shared by HLA molecules encoded by two or more HLA alleles.

As used herein “to treat” or “therapeutic” and grammatically related terms, refer to any improvement of any consequence of disease, such as prolonged survival, less morbidity, and/or a lessening of side effects which are the byproducts of an alternative therapeutic modality; full eradication of disease is not required.

A “transgenic animal” (e.g., a mouse or rat) is an animal having cells that contain a transgene, which transgene was introduced into the animal or an ancestor of the animal at a prenatal, e.g., an embryonic stage. A “transgene” is a DNA that is integrated into the genome of a cell from which a transgenic animal develops.

As used herein, an HLA or cellular immune response “vaccine” is a composition that contains or encodes one or more peptides of the invention. There are numerous embodiments of such vaccines, such as a cocktail of one or more individual peptides; one or more peptides of the invention comprised by a polyepitopic peptide; or nucleic acids that encode such individual peptides or polypeptides, e.g., a minigene that encodes a polyepitopic peptide. The “one or more peptides” can include any whole unit integer from 1-150 or more, e.g., at least 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, or 150 or more peptides of the invention. The peptides or polypeptides can optionally be modified, such as by lipidation, addition of targeting or other sequences. HLA class I peptides of the invention can be admixed with, or linked to, HLA class II peptides, to facilitate activation of both cytotoxic T lymphocytes and helper T lymphocytes. HLA vaccines can also comprise peptide-pulsed antigen presenting cells, e.g., dendritic cells.

The term “variant” refers to a molecule that exhibits a variation from a described type or norm, such as a protein that has one or more different amino acid residues in the corresponding position(s) of a specifically described protein (e.g. the 184P1E2 protein shown in FIG. 2 or FIG. 3. An analog is an example of a variant protein. Splice isoforms and single nucleotides polymorphisms (SNPs) are further examples of variants.

The “184P1E2-related proteins” of the invention include those specifically identified herein, as well as allelic variants, conservative substitution variants, analogs and homologs that can be isolated/generated and characterized without undue experimentation following the methods outlined herein or readily available in the art. Fusion proteins that combine parts of different 184P1E2 proteins or fragments thereof, as well as fusion proteins of a 184P1E2 protein and a heterologous polypeptide are also included. Such 184P1E2 proteins are collectively referred to as the 184P1E2-related proteins, the proteins of the invention, or 184P1E2. The term “184P1E2-related protein” refers to a polypeptide fragment or a 184P1E2 protein sequence of 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, or more than 25 amino acids; or, at least 30, 35, 40, 45, 50, 55, 60, 65, 70, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150, 155, 160, 165, 170, 175, 180, 185, 190, 195, 200, 225, 250, 275, 300, 325, 350, 375, 400, 425, 450, 475, 500, 525, 550, 575, 600, 625, 650, or 664 or more amino acids.

II.) 184P1E2 Polynucleotides

One aspect of the invention provides polynucleotides corresponding or complementary to all or part of a 184P1E2 gene, mRNA, and/or coding sequence, preferably in isolated form, including polynucleotides encoding a 184P1E2-related protein and fragments thereof, DNA, RNA, DNA/RNA hybrid, and related molecules, polynucleotides or oligonucleotides complementary to a 184P1E2 gene or mRNA sequence or a part thereof, and polynucleotides or oligonucleotides that hybridize to a 184P1E2 gene, mRNA, or to a 184P1E2 encoding polynucleotide (collectively, “184P1E2 polynucleotides”). In all instances when referred to in this section, T can also be U in FIG. 2.

Embodiments of a 184P1E2 polynucleotide include: a 184P1E2 polynucleotide having the sequence shown in FIG. 2, the nucleotide sequence of 184P1E2 as shown in FIG. 2 wherein T is U; at least 10 contiguous nucleotides of a polynucleotide having the sequence as shown in FIG. 2; or, at least 10 contiguous nucleotides of a polynucleotide having the sequence as shown in FIG. 2 where T is U. For example, embodiments of 184P1E2 nucleotides comprise, without limitation:

(I) a polynucleotide comprising, consisting essentially of, or consisting of a sequence as shown in FIG. 2A (SEQ ID NO: 2), wherein T can also be U;

(II) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2A (SEQ ID NO: 2), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(III) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2B (SEQ ID NO: 4), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(IV) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2C (SEQ ID NO: 6), from nucleotide residue number 42 through nucleotide residue number 2036, including the a stop codon, wherein T can also be U;

(V) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2D (SEQ ID NO: 8), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(VI) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2E (SEQ ID NO: 10), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(VII) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2F (SEQ ID NO: 12), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(VIII) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2G (SEQ ID NO: 14), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(IX) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2H (SEQ ID NO: 16), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(X) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2I (SEQ ID NO: 18), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(XII) a polynucleotide comprising, consisting essentially of, or consisting of the sequence as shown in FIG. 2J (SEQ ID NO: 20), from nucleotide residue number 42 through nucleotide residue number 2036, including the stop codon, wherein T can also be U;

(XIII) a polynucleotide that encodes a 184P1E2-related protein that is at least 90% homologous to an entire amino acid sequence shown in FIG. 2A-J (SEQ ID NO: 3);

(XIV) a polynucleotide that encodes a 184P1E2-related protein that is at least 90% identical to an entire amino acid sequence shown in FIG. 2A-J (SEQ ID NO: 5);

(XV) a polynucleotide that encodes at least one peptide set forth in Tables V-XVIII and XXII-LI;

(XVI) a polynucleotide that encodes a peptide region of at least 5 amino acids of a peptide of FIG. 3A in any whole number increment up to 664 that includes an amino acid position having a value greater than 0.5 in the Hydrophilicity profile of FIG. 5;

(XVII) a polynucleotide that encodes a peptide region of at least 5 amino acids of a peptide of FIG. 3A in any whole number increment up to 664 that includes an amino acid position having a value less than 0.5 in the Hydropathicity profile of FIG. 6;

(XVIII) a polynucleotide that encodes a peptide region of at least 5 amino acids of a peptide of FIG. 3A in any whole number increment up to 664 that includes an amino acid position having a value greater than 0.5 in the Percent Accessible Residues profile of FIG. 7;

(XIX) a polynucleotide that encodes a peptide region of at least 5 amino acids of a peptide of FIG. 3A in any whole number increment up to 664 that includes an amino acid position having a value greater than 0.5 in the Average Flexibility profile of FIG. 8;

(XX) a polynucleotide that encodes a peptide region of at least 5 amino acids of a peptide of FIG. 3A in any whole number increment up to 664 that includes an amino acid position having a value greater than 0.5 in the Beta-turn profile of FIG. 9;

(XXI) a polynucleotide that is fully complementary to a polynucleotide of any one of (I) —(XX).

(XXII) a peptide that is encoded by any of (I) —(XXI); and

(XXI) a polynucleotide of any of (I) —(XXI) or peptide of (XXII) together with a pharmaceutical excipient and/or in a human unit dose form.

As used herein, a range is understood to specifically disclose all whole unit positions thereof.

Typical embodiments of the invention disclosed herein include 184P1E2 polynucleotides that encode specific portions of 184P1E2 mRNA sequences (and those which are complementary to such sequences) such as those that encode the proteins and/or fragments thereof, for example:

(a) 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150, 155, 160, 165, 170, 175, 180, 185, 190, 195, 200, 225, 250, 275, 300, 325, 350, 375, 400, 425, 450, 475, 500, 525, 550, 575, 600, 625, 650, or 664 or more contiguous amino acids of 184P1E2.

For example, representative embodiments of the invention disclosed herein include: polynucleotides and their encoded peptides themselves encoding about amino acid 1 to about amino acid 10 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 10 to about amino acid 20 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 20 to about amino acid 30 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 30 to about amino acid 40 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 40 to about amino acid 50 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 50 to about amino acid 60 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 60 to about amino acid 70 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 70 to about amino acid 80 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 80 to about amino acid 90 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, polynucleotides encoding about amino acid 90 to about amino acid 100 of the 184P1E2 protein shown in FIG. 2 or FIG. 3, in increments of about 10 amino acids, ending at the carboxyl terminal amino acid set forth in FIG. 2 or FIG. 3. Accordingly polynucleotides encoding portions of the amino acid sequence (of about 10 amino acids), of amino acids 100 through the carboxyl terminal amino acid of the 184P1E2 protein are embodiments of the invention. Wherein it is understood that each particular amino acid position discloses that position plus or minus five amino acid residues.

Polynucleotides encoding relatively long portions of a 184P1E2 protein are also within the scope of the invention. For example, polynucleotides encoding from about amino acid 1 (or 20 or 30 or 40 etc.) to about amino acid 20, (or 30, or 40 or 50 etc.) of the 184P1E2 protein “or variant” shown in FIG. 2 or FIG. 3 can be generated by a variety of techniques well known in the art. These polynucleotide fragments can include any portion of the 184P1E2 sequence as shown in FIG. 2.

Additional illustrative embodiments of the invention disclosed herein include 184P1E2 polynucleotide fragments encoding one or more of the biological motifs contained within a 184P1E2 protein “or variant” sequence, including one or more of the motif-bearing subsequences of a 184P1E2 protein “or variant” set forth in Tables V-XVIII and XXII-LI. In another embodiment, typical polynucleotide fragments of the invention encode one or more of the regions of 184P1E2 protein or variant that exhibit homology to a known molecule. In another embodiment of the invention, typical polynucleotide fragments can encode one or more of the 184P1E2 protein or variant N-glycosylation sites, cAMP and cGMP-dependent protein kinase phosphorylation sites, casein kinase II phosphorylation sites or N-myristoylation site and amidation sites.

II.A.) Uses of 184P1E2 Polynucleotides

II.A.I.) Monitoring of Genetic Abnormalities

The polynucleotides of the preceding paragraphs have a number of different specific uses. The human 184P1E2 gene maps to the chromosomal location set forth in the Example entitled “Chromosomal Mapping of 184P1E2.” For example, because the 184P1E2 gene maps to this chromosome, polynucleotides that encode different regions of the 184P1E2 proteins are used to characterize cytogenetic abnormalities of this chromosomal locale, such as abnormalities that are identified as being associated with various cancers. In certain genes, a variety of chromosomal abnormalities including rearrangements have been identified as frequent cytogenetic abnormalities in a number of different cancers (see e.g. Krajinovic et al., Mutat. Res. 382(3-4): 81-83 (1998); Johansson et al., Blood 86(10): 3905-3914 (1995) and Finger et al., P.N.A.S. 85(23): 9158-9162 (1988)). Thus, polynucleotides encoding specific regions of the 184P1E2 proteins provide new tools that can be used to delineate, with greater precision than previously possible, cytogenetic abnormalities in the chromosomal region that encodes 184P1E2 that may contribute to the malignant phenotype. In this context, these polynucleotides satisfy a need in the art for expanding the sensitivity of chromosomal screening in order to identify more subtle and less common chromosomal abnormalities (see e.g. Evans et al., Am. J. Obstet. Gynecol 171(4): 1055-1057 (1994)).

Furthermore, as 184P1E2 was shown to be highly expressed in bladder and other cancers, 184P1E2 polynucleotides are used in methods assessing the status of 184P1E2 gene products in normal versus cancerous tissues. Typically, polynucleotides that encode specific regions of the 184P1E2 proteins are used to assess the presence of perturbations (such as deletions, insertions, point mutations, or alterations resulting in a loss of an antigen etc.) in specific regions of the 184P1E2 gene, such as regions containing one or more motifs. Exemplary assays include both RT-PCR assays as well as single-strand conformation polymorphism (SSCP) analysis (see, e.g., Marrogi et al., J. Cutan. Pathol. 26(8): 369-378 (1999), both of which utilize polynucleotides encoding specific regions of a protein to examine these regions within the protein.

II.A.2.) Anti sense Embodiments

Other specifically contemplated nucleic acid related embodiments of the invention disclosed herein are genomic DNA, cDNAs, ribozymes, and antisense molecules, as well as nucleic acid molecules based on an alternative backbone, or including alternative bases, whether derived from natural sources or synthesized, and include molecules capable of inhibiting the RNA or protein expression of 184P1E2. For example, antisense molecules can be RNAs or other molecules, including peptide nucleic acids (PNAs) or non-nucleic acid molecules such as phosphorothioate derivatives, that specifically bind DNA or RNA in a base pair-dependent manner. A skilled artisan can readily obtain these classes of nucleic acid molecules using the 184P1E2 polynucleotides and polynucleotide sequences disclosed herein.

Antisense technology entails the administration of exogenous oligonucleotides that bind to a target polynucleotide located within the cells. The term “antisense” refers to the fact that such oligonucleotides are complementary to their intracellular targets, e.g., 184P1E2. See for example, Jack Cohen, Oligodeoxynucleotides, Antisense Inhibitors of Gene Expression, CRC Press, 1989; and Synthesis 1:1-5 (1988). The 184P1E2 antisense oligonucleotides of the present invention include derivatives such as S-oligonucleotides (phosphorothioate derivatives or S-oligos, see, Jack Cohen, supra), which exhibit enhanced cancer cell growth inhibitory action. S-oligos (nucleoside phosphorothioates) are isoelectronic analogs of an oligonucleotide (O-oligo) in which a nonbridging oxygen atom of the phosphate group is replaced by a sulfur atom. The S-oligos of the present invention can be prepared by treatment of the corresponding O-oligos with 3H-1,2-benzodithiol-3-one-1,1-dioxide, which is a sulfur transfer reagent. See, e.g., Iyer, R. P. et al., J. Org. Chem. 55:4693-4698 (1990); and Iyer, R. P. et al., J. Am. Chem. Soc. 112:1253-1254 (1990). Additional 184P1E2 antisense oligonucleotides of the present invention include morpholino antisense oligonucleotides known in the art (see, e.g., Partridge et al., 1996, Antisense & Nucleic Acid Drug Development 6: 169-175).

The 184P1E2 antisense oligonucleotides of the present invention typically can be RNA or DNA that is complementary to and stably hybridizes with the first 100 5′ codons or last 100 3′ codons of a 184P1E2 genomic sequence or the corresponding mRNA. Absolute complementarity is not required, although high degrees of complementarity are preferred. Use of an oligonucleotide complementary to this region allows for the selective hybridization to 184P1E2 mRNA and not to mRNA specifying other regulatory subunits of protein kinase. In one embodiment, 184P1E2 antisense oligonucleotides of the present invention are 15 to 30-mer fragments of the antisense DNA molecule that have a sequence that hybridizes to 184P1E2 mRNA. Optionally, 184P1E2 antisense oligonucleotide is a 30-mer oligonucleotide that is complementary to a region in the first 10 5′ codons or last 10 3′ codons of 184P1E2. Alternatively, the antisense molecules are modified to employ ribozymes in the inhibition of 184P1E2 expression, see, e.g., L. A. Couture & D. T. Stinchcomb; Trends Genet. 12: 510-515 (1996).

II.A.3.) Primers and Primer Pairs

Further specific embodiments of this nucleotides of the invention include primers and primer pairs, which allow the specific amplification of polynucleotides of the invention or of any specific parts thereof, and probes that selectively or specifically hybridize to nucleic acid molecules of the invention or to any part thereof. Probes can be labeled with a detectable marker, such as, for example, a radioisotope, fluorescent compound, bioluminescent compound, a chemiluminescent compound, metal chelator or enzyme. Such probes and primers are used to detect the presence of a 184P1E2 polynucleotide in a sample and as a means for detecting a cell expressing a 184P1E2 protein.

Examples of such probes include polypeptides comprising all or part of the human 184P1E2 cDNA sequence shown in FIG. 2. Examples of primer pairs capable of specifically amplifying 184P1E2 mRNAs are also described in the Examples. As will be understood by the skilled artisan, a great many different primers and probes can be prepared based on the sequences provided herein and used effectively to amplify and/or detect a 184P1E2 mRNA.

The 184P1E2 polynucleotides of the invention are useful for a variety of purposes, including but not limited to their use as probes and primers for the amplification and/or detection of the 184P1E2 gene(s), mRNA(s), or fragments thereof; as reagents for the diagnosis and/or prognosis of prostate cancer and other cancers; as coding sequences capable of directing the expression of 184P1E2 polypeptides; as tools for modulating or inhibiting the expression of the 184P1E2 gene(s) and/or translation of the 184P1E2 transcript(s); and as therapeutic agents.

The present invention includes the use of any probe as described herein to identify and isolate a 184P1E2 or 184P1E2 related nucleic acid sequence from a naturally occurring source, such as humans or other mammals, as well as the isolated nucleic acid sequence per se, which would comprise all or most of the sequences found in the probe used.

II.A.4.) Isolation of 184P1E2-Encoding Nucleic Acid Molecules

The 184P1E2 cDNA sequences described herein enable the isolation of other polynucleotides encoding 184P1E2 gene product(s), as well as the isolation of polynucleotides encoding 184P1E2 gene product homologs, alternatively spliced isoforms, allelic variants, and mutant forms of a 184P1E2 gene product as well as polynucleotides that encode analogs of 184P1E2-related proteins. Various molecular cloning methods that can be employed to isolate full length cDNAs encoding a 184P1E2 gene are well known (see, for example, Sambrook, J. et al., Molecular Cloning: A Laboratory Manual, 2d edition, Cold Spring Harbor Press, New York, 1989; Current Protocols in Molecular Biology. Ausubel et al., Eds., Wiley and Sons, 1995). For example, lambda phage cloning methodologies can be conveniently employed, using commercially available cloning systems (e.g., Lambda ZAP Express, Stratagene). Phage clones containing 184P1E2 gene cDNAs can be identified by probing with a labeled 184P1E2 cDNA or a fragment thereof. For example, in one embodiment, a 184P1E2 cDNA (e.g., FIG. 2) or a portion thereof can be synthesized and used as a probe to retrieve overlapping and full-length cDNAs corresponding to a 184P1E2 gene. A 184P1E2 gene itself can be isolated by screening genomic DNA libraries, bacterial artificial chromosome libraries (BACs), yeast artificial chromosome libraries (YACs), and the like, with 184P1E2 DNA probes or primers.

II.A.5.) Recombinant Nucleic Acid Molecules and Host-Vector Systems

The invention also provides recombinant DNA or RNA molecules containing a 184P1E2 polynucleotide, a fragment, analog or homologue thereof, including but not limited to phages, plasmids, phagemids, cosmids, YACs, BACs, as well as various viral and non-viral vectors well known in the art, and cells transformed or transfected with such recombinant DNA or RNA molecules. Methods for generating such molecules are well known (see, for example, Sambrook et al., 1989, supra).

The invention further provides a host-vector system comprising a recombinant DNA molecule containing a 184P1E2 polynucleotide, fragment, analog or homologue thereof within a suitable prokaryotic or eukaryotic host cell. Examples of suitable eukaryotic host cells include a yeast cell, a plant cell, or an animal cell, such as a mammalian cell or an insect cell (e.g., a baculovirus-infectible cell such as an Sf9 or HighFive cell). Examples of suitable mammalian cells include various prostate cancer cell lines such as DU145 and TsuPr1, other transfectable or transducible prostate cancer cell lines, primary cells (PrEC), as well as a number of mammalian cells routinely used for the expression of recombinant proteins (e.g., COS, CHO, 293, 293T cells). More particularly, a polynucleotide comprising the coding sequence of 184P1E2 or a fragment, analog or homolog thereof can be used to generate 184P1E2 proteins or fragments thereof using any number of host-vector systems routinely used and widely known in the art.

A wide range of host-vector systems suitable for the expression of 184P1E2 proteins or fragments thereof are available, see for example, Sambrook et al., 1989, supra; Current Protocols in Molecular Biology, 1995, supra). Preferred vectors for mammalian expression include but are not limited to pcDNA 3.1 myc-His-tag (Invitrogen) and the retroviral vector pSRαtkneo (Muller et al., 1991, MCB 11:1785). Using these expression vectors, 184P1E2 can be expressed in several prostate cancer and non-prostate cell lines, including for example 293, 293T, rat-1, NIH 3T3 and TsuPr1. The host-vector systems of the invention are useful for the production of a 184P1E2 protein or fragment thereof. Such host-vector systems can be employed to study the functional properties of 184P1E2 and 184P1E2 mutations or analogs.

Recombinant human 184P1E2 protein or an analog or homolog or fragment thereof can be produced by mammalian cells transfected with a construct encoding a 184P1E2-related nucleotide. For example, 293T cells can be transfected with an expression plasmid encoding 184P1E2 or fragment, analog or homolog thereof, a 184P1E2-related protein is expressed in the 293T cells, and the recombinant 184P1E2 protein is isolated using standard purification methods (e.g., affinity purification using anti-184P1E2 antibodies). In another embodiment, a 184P1E2 coding sequence is subcloned into the retroviral vector pSRαMSVtkneo and used to infect various mammalian cell lines, such as NIH 3T3, TsuPr1, 293 and rat-1 in order to establish 184P1E2 expressing cell lines. Various other expression systems well known in the art can also be employed. Expression constructs encoding a leader peptide joined in frame to a 184P1E2 coding sequence can be used for the generation of a secreted form of recombinant 184P1E2 protein.

As discussed herein, redundancy in the genetic code permits variation in 184P1E2 gene sequences. In particular, it is known in the art that specific host species often have specific codon preferences, and thus one can adapt the disclosed sequence as preferred for a desired host. For example, preferred analog codon sequences typically have rare codons (i.e., codons having a usage frequency of less than about 20% in known sequences of the desired host) replaced with higher frequency codons. Codon preferences for a specific species are calculated, for example, by utilizing codon usage tables available on the INTERNET.

Additional sequence modifications are known to enhance protein expression in a cellular host. These include elimination of sequences encoding spurious polyadenylation signals, exon/intron splice site signals, transposon-like repeats, and/or other such well-characterized sequences that are deleterious to gene expression. The GC content of the sequence is adjusted to levels average for a given cellular host, as calculated by reference to known genes expressed in the host cell. Where possible, the sequence is modified to avoid predicted hairpin secondary mRNA structures. Other useful modifications include the addition of a translational initiation consensus sequence at the start of the open reading frame, as described in Kozak, Mol. Cell Biol., 9:5073-5080 (1989). Skilled artisans understand that the general rule that eukaryotic ribosomes initiate translation exclusively at the 5′ proximal AUG codon is abrogated only under rare conditions (see, e.g., Kozak PNAS 92(7): 2662-2666, (1995) and Kozak NAR 15(20): 8125-8148 (1987)).

III.) 184P1E2-Related Proteins

Another aspect of the present invention provides 184P1E2-related proteins. Specific embodiments of 184P1E2 proteins comprise a polypeptide having all or part of the amino acid sequence of human 184P1E2 as shown in FIG. 2 or FIG. 3. Alternatively, embodiments of 184P1E2 proteins comprise variant, homolog or analog polypeptides that have alterations in the amino acid sequence of 184P1E2 shown in FIG. 2 or FIG. 3.

In general, naturally occurring allelic variants of human 184P1E2 share a high degree of structural identity and homology (e.g., 90% or more homology). Typically, allelic variants of a 184P1E2 protein contain conservative amino acid substitutions within the 184P1E2 sequences described herein or contain a substitution of an amino acid from a corresponding position in a homologue of 184P1E2. One class of 184P1E2 allelic variants are proteins that share a high degree of homology with at least a small region of a particular 184P1E2 amino acid sequence, but further contain a radical departure from the sequence, such as a non-conservative substitution, truncation, insertion or frame shift. In comparisons of protein sequences, the terms, similarity, identity, and homology each have a distinct meaning as appreciated in the field of genetics. Moreover, orthology and paralogy can be important concepts describing the relationship of members of a given protein family in one organism to the members of the same family in other organisms.

Amino acid abbreviations are provided in Table H. Conservative amino acid substitutions can frequently be made in a protein without altering either the conformation or the function of the protein. Proteins of the invention can comprise 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15 conservative substitutions. Such changes include substituting any of isoleucine (I), valine (V), and leucine (L) for any other of these hydrophobic amino acids; aspartic acid (D) for glutamic acid (E) and vice versa; glutamine (Q) for asparagine (N) and vice versa; and serine (S) for threonine (T) and vice versa. Other substitutions can also be considered conservative, depending on the environment of the particular amino acid and its role in the three-dimensional structure of the protein. For example, glycine (G) and alanine (A) can frequently be interchangeable, as can alanine (A) and valine (V). Methionine (M), which is relatively hydrophobic, can frequently be interchanged with leucine and isoleucine, and sometimes with valine. Lysine (K) and arginine (R) are frequently interchangeable in locations in which the significant feature of the amino acid residue is its charge and the differing pK's of these two amino acid residues are not significant. Still other changes can be considered “conservative” in particular environments (see, e.g. Table III herein; pages 13-15 “Biochemistry” 2^(nd) ED. Lubert Stryer ed (Stanford University); Henikoff et al., PNAS 1992 Vol 89 10915-10919; Lei et al., J Biol Chem 1995 May 19; 270(20):11882-6).

Embodiments of the invention disclosed herein include a wide variety of art-accepted variants or analogs of 184P1E2 proteins such as polypeptides having amino acid insertions, deletions and substitutions. 184P1E2 variants can be made using methods known in the art such as site-directed mutagenesis, alanine scanning, and PCR mutagenesis. Site-directed mutagenesis (Carter et al., Nucl. Acids Res., 13:4331 (1986); Zoller et al., Nucl. Acids Res., 10:6487 (1987)), cassette mutagenesis (Wells et al., Gene, 34:315 (1985)), restriction selection mutagenesis (Wells et al., Philos. Trans. R. Soc. London SerA, 317:415 (1986)) or other known techniques can be performed on the cloned DNA to produce the 184P1E2 variant DNA.

Scanning amino acid analysis can also be employed to identify one or more amino acids along a contiguous sequence that is involved in a specific biological activity such as a protein-protein interaction. Among the preferred scanning amino acids are relatively small, neutral amino acids. Such amino acids include alanine, glycine, serine, and cysteine. Alanine is typically a preferred scanning amino acid among this group because it eliminates the side-chain beyond the beta-carbon and is less likely to alter the main-chain conformation of the variant. Alanine is also typically preferred because it is the most common amino acid. Further, it is frequently found in both buried and exposed positions (Creighton, The Proteins, (W.H. Freeman & Co., N.Y.); Chothia, J. Mol. Biol., 150:1 (1976)). If alanine substitution does not yield adequate amounts of variant, an isosteric amino acid can be used.

As defined herein, 184P1E2 variants, analogs or homologs, have the distinguishing attribute of having at least one epitope that is “cross reactive” with a 184P1E2 protein having an amino acid sequence of FIG. 3. As used in this sentence, “cross reactive” means that an antibody or T cell that specifically binds to a 184P1E2 variant also specifically binds to a 184P1E2 protein having an amino acid sequence set forth in FIG. 3. A polypeptide ceases to be a variant of a protein shown in FIG. 3, when it no longer contains any epitope capable of being recognized by an antibody or T cell that specifically binds to the starting 184P1E2 protein. Those skilled in the art understand that antibodies that recognize proteins bind to epitopes of varying size, and a grouping of the order of about four or five amino acids, contiguous or not, is regarded as a typical number of amino acids in a minimal epitope. See, e.g., Nair et al., J. Immunol 2000 165(12): 6949-6955; Hebbes et al., Mol Immunol (1989) 26(9):865-73; Schwartz et al., J Immunol (1985) 135(4):2598-608.

Other classes of 184P1E2-related protein variants share 70%, 75%, 80%, 85% or 90% or more similarity with an amino acid sequence of FIG. 3, or a fragment thereof. Another specific class of 184P1E2 protein variants or analogs comprise one or more of the 184P1E2 biological motifs described herein or presently known in the art. Thus, encompassed by the present invention are analogs of 184P1E2 fragments (nucleic or amino acid) that have altered functional (e.g. immunogenic) properties relative to the starting fragment. It is to be appreciated that motifs now or which become part of the art are to be applied to the nucleic or amino acid sequences of FIG. 2 or 3.

As discussed herein, embodiments of the claimed invention include polypeptides containing less than the full amino acid sequence of a 184P1E2 protein shown in FIG. 2 or FIG. 3. For example, representative embodiments of the invention comprise peptides/proteins having any 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15 or more contiguous amino acids of a 184P1E2 protein shown in FIG. 2 or FIG. 3.

Moreover, representative embodiments of the invention disclosed herein include polypeptides consisting of about amino acid 1 to about amino acid 10 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 10 to about amino acid 20 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 20 to about amino acid 30 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 30 to about amino acid 40 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 40 to about amino acid 50 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 50 to about amino acid 60 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 60 to about amino acid 70 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 70 to about amino acid 80 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 80 to about amino acid 90 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, polypeptides consisting of about amino acid 90 to about amino acid 100 of a 184P1E2 protein shown in FIG. 2 or FIG. 3, etc. throughout the entirety of a 184P1E2 amino acid sequence. Moreover, polypeptides consisting of about amino acid 1 (or 20 or 30 or 40 etc.) to about amino acid 20, (or 130, or 140 or 150 etc.) of a 184P1E2 protein shown in FIG. 2 or FIG. 3 are embodiments of the invention. It is to be appreciated that the starting and stopping positions in this paragraph refer to the specified position as well as that position plus or minus 5 residues.

184P1E2-related proteins are generated using standard peptide synthesis technology or using chemical cleavage methods well known in the art. Alternatively, recombinant methods can be used to generate nucleic acid molecules that encode a 184P1E2-related protein. In one embodiment, nucleic acid molecules provide a means to generate defined fragments of a 184P1E2 protein (or variants, homologs or analogs thereof).

III.A.) Motif-Bearing Protein Embodiments

Additional illustrative embodiments of the invention disclosed herein include 184P1E2 polypeptides comprising the amino acid residues of one or more of the biological motifs contained within a 184P1E2 polypeptide sequence set forth in FIG. 2 or FIG. 3. Various motifs are known in the art, and a protein can be evaluated for the presence of such motifs by a number of publicly available Internet sites (see, e.g., Epimatrix™ and Epimer™, Brown University, and BIMAS.

Motif bearing subsequences of all 184P1E2 variant proteins are set forth and identified in Tables V-XVIII and XXII-LI.

Table XIX sets forth several frequently occurring motifs based on pfam searches (see URL address pfam.wustl.edu/). The columns of Table XIX list (1) motif name abbreviation, (2) percent identity found amongst the different member of the motif family, (3) motif name or description and (4) most common function; location information is included if the motif is relevant for location.

Polypeptides comprising one or more of the 184P1E2 motifs discussed above are useful in elucidating the specific characteristics of a malignant phenotype in view of the observation that the 184P1E2 motifs discussed above are associated with growth dysregulation and because 184P1E2 is overexpressed in certain cancers (See, e.g., Table I). Casein kinase II, cAMP and camp-dependent protein kinase, and Protein Kinase C, for example, are enzymes known to be associated with the development of the malignant phenotype (see e.g. Chen et al., Lab Invest., 78(2): 165-174 (1998); Gaiddon et al., Endocrinology 136(10): 4331-4338 (1995); Hall et al., Nucleic Acids Res. 24(6): 1119-1126 (1996); Peterziel et al., Oncogene 18(46): 6322-6329 (1999) and O'Brian, Oncol. Rep. 5(2): 305-309 (1998)). Moreover, both glycosylation and myristoylation are protein modifications also associated with cancer and cancer progression (see e.g. Dennis et al., Biochem. Biophys. Acta 1473(1):21-34 (1999); Raju et al., Exp. Cell Res. 235(1): 145-154 (1997)). Amidation is another protein modification also associated with cancer and cancer progression (see e.g. Treston et al., J. Natl. Cancer Inst. Monogr. (13): 169-175 (1992)).

In another embodiment, proteins of the invention comprise one or more of the immunoreactive epitopes identified in accordance with art-accepted methods, such as the peptides set forth in Tables V-XVIII and XXII-LI. CTL epitopes can be determined using specific algorithms to identify peptides within a 184P1E2 protein that are capable of optimally binding to specified HLA alleles (e.g., Table IV; Epimatrix™ and Epimer™, Brown University, and BIMAS). Moreover, processes for identifying peptides that have sufficient binding affinity for HLA molecules and which are correlated with being immunogenic epitopes, are well known in the art, and are carried out without undue experimentation. In addition, processes for identifying peptides that are immunogenic epitopes, are well known in the art, and are carried out without undue experimentation either in vitro or in vivo.

Also known in the art are principles for creating analogs of such epitopes in order to modulate immunogenicity. For example, one begins with an epitope that bears a CTL or HTL motif (see, e.g., the HLA Class I and HLA Class II motifs/supermotifs of Table IV). The epitope is analoged by substituting out an amino acid at one of the specified positions, and replacing it with another amino acid specified for that position. For example, one can substitute out a deleterious residue in favor of any other residue, such as a preferred residue as defined in Table IV; substitute a less-preferred residue with a preferred residue as defined in Table IV; or substitute an originally-occurring preferred residue with another preferred residue as defined in Table IV. Substitutions can occur at primary anchor positions or at other positions in a peptide; see, e.g., Table IV.

A variety of references reflect the art regarding the identification and generation of epitopes in a protein of interest as well as analogs thereof. See, for example, WO 97/33602 to Chesnut et al.; Sette, Immunogenetics 1999 50(3-4): 201-212; Sette et al., J. Immunol. 2001 166(2): 1389-1397; Sidney et al., Hum. Immunol. 1997 58(1): 12-20; Kondo et al., Immunogenetics 1997 45(4): 249-258; Sidney et al., J. Immunol. 1996 157(8): 3480-90; and Falk et al., Nature 351: 290-6 (1991); Hunt et al., Science 255:1261-3 (1992); Parker et al., J. Immunol. 149:3580-7 (1992); Parker et al., J. Immunol. 152:163-75 (1994)); Kast et al., 1994 152(8): 3904-12; Borras-Cuesta et al., Hum. Immunol. 2000 61(3): 266-278; Alexander et al., J. Immunol. 2000 164(3); 164(3): 1625-1633; Alexander et al., PMID: 7895164, UI: 95202582; O'Sullivan et al., J. Immunol. 1991 147(8): 2663-2669; Alexander et al., Immunity 1994 1(9): 751-761 and Alexander et al., Immunol. Res. 1998 18(2): 79-92.

Related embodiments of the invention include polypeptides comprising combinations of the different motifs set forth in Table XX, and/or, one or more of the predicted CTL epitopes of Tables V-XVII and XXII-XLVII, and/or, one or more of the predicted HTL epitopes of Tables XLVIII-LI, and/or, one or more of the T cell binding motifs known in the art. Preferred embodiments contain no insertions, deletions or substitutions either within the motifs or the intervening sequences of the polypeptides. In addition, embodiments which include a number of either N-terminal and/or C-terminal amino acid residues on either side of these motifs may be desirable (to, for example, include a greater portion of the polypeptide architecture in which the motif is located). Typically the number of N-terminal and/or C-terminal amino acid residues on either side of a motif is between about 1 to about 100 amino acid residues, preferably 5 to about 50 amino acid residues.

184P1E2-related proteins are embodied in many forms, preferably in isolated form. A purified 184P1E2 protein molecule will be substantially free of other proteins or molecules that impair the binding of 184P1E2 to antibody, T cell or other ligand. The nature and degree of isolation and purification will depend on the intended use. Embodiments of a 184P1E2-related proteins include purified 184P1E2-related proteins and functional, soluble 184P1E2-related proteins. In one embodiment, a functional, soluble 184P1E2 protein or fragment thereof retains the ability to be bound by antibody, T cell or other ligand.

The invention also provides 184P1E2 proteins comprising biologically active fragments of a 184P1E2 amino acid sequence shown in FIG. 2 or FIG. 3. Such proteins exhibit properties of the starting 184P1E2 protein, such as the ability to elicit the generation of antibodies that specifically bind an epitope associated with the starting 184P1E2 protein; to be bound by such antibodies; to elicit the activation of HTL or CTL; and/or, to be recognized by HTL or CTL that also specifically bind to the starting protein.

184P1E2-related polypeptides that contain particularly interesting structures can be predicted and/or identified using various analytical techniques well known in the art, including, for example, the methods of Chou-Fasman, Garnier-Robson, Kyte-Doolittle, Eisenberg, Karplus-Schultz or Jameson-Wolf analysis, or on the basis of immunogenicity. Fragments that contain such structures are particularly useful in generating subunit-specific anti-184P1E2 antibodies, or T cells or in identifying cellular factors that bind to 184P1E2. For example, hydrophilicity profiles can be generated, and immunogenic peptide fragments identified, using the method of Hopp, T. P. and Woods, K. R., 1981, Proc. Natl. Acad. Sci. U.S.A. 78:3824-3828. Hydropathicity profiles can be generated, and immunogenic peptide fragments identified, using the method of Kyte, J. and Doolittle, R. F., 1982, J. Mol. Biol. 157:105-132. Percent (%) Accessible Residues profiles can be generated, and immunogenic peptide fragments identified, using the method of Janin J., 1979, Nature 277:491-492. Average Flexibility profiles can be generated, and immunogenic peptide fragments identified, using the method of Bhaskaran R., Ponnuswamy P. K., 1988, Int. J. Pept. Protein Res. 32:242-255. Beta-turn profiles can be generated, and immunogenic peptide fragments identified, using the method of Deleage, G., Roux B., 1987, Protein Engineering 1:289-294.

CTL epitopes can be determined using specific algorithms to identify peptides within a 184P1E2 protein that are capable of optimally binding to specified HLA alleles (e.g., by using the SYFPEITHI site on the INTERNET (the listings in Table IV(A)-(E)), Epimatrix™ and Epimer™, Brown University, and BIMAS). Illustrating this, peptide epitopes from 184P1E2 that are presented in the context of human MHC Class I molecules, e.g., HLA-A1, A2, A3, A11, A24, B7 and B35 were predicted (see, e.g., Tables V-XVIII, XXII-LI). Specifically, the complete amino acid sequence of the 184P1E2 protein and relevant portions of other variants, i.e., for HLA Class I predictions 9 flanking residues on either side of a point mutation, and for HLA Class II predictions 14 flanking residues on either side of a point mutation, were entered into the HLA Peptide Motif Search algorithm found in the Bioinformatics and Molecular Analysis Section (BIMAS) web site listed above; in addition to the INTERNET site SYFPEITHI.

The HLA peptide motif search algorithm was developed by Dr. Ken Parker based on binding of specific peptide sequences in the groove of HLA Class I molecules, in particular HLA-A2 (see, e.g., Falk et al., Nature 351: 290-6 (1991); Hunt et al., Science 255:1261-3 (1992); Parker et al., J. Immunol. 149:3580-7 (1992); Parker et al., J. Immunol. 152:163-75 (1994)). This algorithm allows location and ranking of 8-mer, 9-mer, and 10-mer peptides from a complete protein sequence for predicted binding to HLA-A2 as well as numerous other HLA Class I molecules. Many HLA class I binding peptides are 8-, 9-, 10 or 11-mers. For example, for Class I HLA-A2, the epitopes preferably contain a leucine (L) or methionine (M) at position 2 and a valine (V) or leucine (L) at the C-terminus (see, e.g., Parker et al., J. Immunol. 149:3580-7 (1992)). Selected results of 184P1E2 predicted binding peptides are shown in Tables V-XVIII and XXII-LI herein. In Tables V-XVIII and XXII-XLVII, selected candidates, 9-mers and 10-mers, for each family member are shown along with their location, the amino acid sequence of each specific peptide, and an estimated binding score. In Tables XLVIII-LI, selected candidates, 15-mers, for each family member are shown along with their location, the amino acid sequence of each specific peptide, and an estimated binding score. The binding score corresponds to the estimated half time of dissociation of complexes containing the peptide at 37° C. at pH 6.5. Peptides with the highest binding score are predicted to be the most tightly bound to HLA Class I on the cell surface for the greatest period of time and thus represent the best immunogenic targets for T-cell recognition.

Actual binding of peptides to an HLA allele can be evaluated by stabilization of HLA expression on the antigen-processing defective cell line T2 (see, e.g., Xue et al., Prostate 30:73-8 (1997) and Peshwa et al., Prostate 36:129-38 (1998)). Immunogenicity of specific peptides can be evaluated in vitro by stimulation of CD8+ cytotoxic T lymphocytes (CTL) in the presence of antigen presenting cells such as dendritic cells.

It is to be appreciated that every epitope predicted by the BIMAS site, Epimer™ and Epimatrix™ sites, or specified by the HLA class I or class II motifs available in the art or which become part of the art such as set forth in Table IV (or determined using World Wide Web site URL syfpeithi.bmi-heidelberg.com/, or BIMAS, bimas.dcrt.nih.gov/) are to be “applied” to a 184P1E2 protein in accordance with the invention. As used in this context “applied” means that a 184P1E2 protein is evaluated, e.g., visually or by computer-based patterns finding methods, as appreciated by those of skill in the relevant art. Every subsequence of a 184P1E2 protein of 8, 9, 10, or 11 amino acid residues that bears an HLA Class I motif, or a subsequence of 9 or more amino acid residues that bear an HLA Class II motif are within the scope of the invention.

III.B.) Expression of 184P1E2-Related Proteins

In an embodiment described in the examples that follow, 184P1E2 can be conveniently expressed in cells (such as 293T cells) transfected with a commercially available expression vector such as a CMV-driven expression vector encoding 184P1E2 with a C-terminal 6×His and MYC tag (pcDNA3.1/mycHIS, Invitrogen or Tag5, GenHunter Corporation, Nashville Tenn.). The Tag5 vector provides an IgGK secretion signal that can be used to facilitate the production of a secreted 184P1E2 protein in transfected cells. The secreted HIS-tagged 184P1E2 in the culture media can be purified, e.g., using a nickel column using standard techniques.

III.C.) Modifications of 184P1E2-Related Proteins

Modifications of 184P1E2-related proteins such as covalent modifications are included within the scope of this invention. One type of covalent modification includes reacting targeted amino acid residues of a 184P1E2 polypeptide with an organic derivatizing agent that is capable of reacting with selected side chains or the N- or C-terminal residues of a 184P1E2 protein. Another type of covalent modification of a 184P1E2 polypeptide included within the scope of this invention comprises altering the native glycosylation pattern of a protein of the invention. Another type of covalent modification of 184P1E2 comprises linking a 184P1E2 polypeptide to one of a variety of nonproteinaceous polymers, e.g., polyethylene glycol (PEG), polypropylene glycol, or polyoxyalkylenes, in the manner set forth in U.S. Pat. Nos. 4,640,835; 4,496,689; 4,301,144; 4,670,417; 4,791,192 or 4,179,337.

The 184P1E2-related proteins of the present invention can also be modified to form a chimeric molecule comprising 184P1E2 fused to another, heterologous polypeptide or amino acid sequence. Such a chimeric molecule can be synthesized chemically or recombinantly. A chimeric molecule can have a protein of the invention fused to another tumor-associated antigen or fragment thereof. Alternatively, a protein in accordance with the invention can comprise a fusion of fragments of a 184P1E2 sequence (amino or nucleic acid) such that a molecule is created that is not, through its length, directly homologous to the amino or nucleic acid sequences shown in FIG. 2 or FIG. 3. Such a chimeric molecule can comprise multiples of the same subsequence of 184P1E2. A chimeric molecule can comprise a fusion of a 184P1E2-related protein with a polyhistidine epitope tag, which provides an epitope to which immobilized nickel can selectively bind, with cytokines or with growth factors. The epitope tag is generally placed at the amino- or carboxyl-terminus of a 184P1E2 protein. In an alternative embodiment, the chimeric molecule can comprise a fusion of a 184P1E2-related protein with an immunoglobulin or a particular region of an immunoglobulin. For a bivalent form of the chimeric molecule (also referred to as an “immunoadhesin”), such a fusion could be to the Fc region of an IgG molecule. The Ig fusions preferably include the substitution of a soluble (transmembrane domain deleted or inactivated) form of a 184P1E2 polypeptide in place of at least one variable region within an Ig molecule. In a preferred embodiment, the immunoglobulin fusion includes the hinge, CH2 and CH3, or the hinge, CH1, CH2 and CH3 regions of an IgGI molecule. For the production of immunoglobulin fusions see, e.g., U.S. Pat. No. 5,428,130 issued Jun. 27, 1995.

III.D.) Uses of 184P1E2-Related Proteins

The proteins of the invention have a number of different specific uses. As 184P1E2 is highly expressed in prostate and other cancers, 184P1E2-related proteins are used in methods that assess the status of 184P1E2 gene products in normal versus cancerous tissues, thereby elucidating the malignant phenotype. Typically, polypeptides from specific regions of a 184P1E2 protein are used to assess the presence of perturbations (such as deletions, insertions, point mutations etc.) in those regions (such as regions containing one or more motifs). Exemplary assays utilize antibodies or T cells targeting 184P1E2-related proteins comprising the amino acid residues of one or more of the biological motifs contained within a 184P1E2 polypeptide sequence in order to evaluate the characteristics of this region in normal versus cancerous tissues or to elicit an immune response to the epitope. Alternatively, 184P1E2-related proteins that contain the amino acid residues of one or more of the biological motifs in a 184P1E2 protein are used to screen for factors that interact with that region of 184P1E2.

184P1E2 protein fragments/subsequences are particularly useful in generating and characterizing domain-specific antibodies (e.g., antibodies recognizing an extracellular or intracellular epitope of a 184P1E2 protein), for identifying agents or cellular factors that bind to 184P1E2 or a particular structural domain thereof, and in various therapeutic and diagnostic contexts, including but not limited to diagnostic assays, cancer vaccines and methods of preparing such vaccines.

Proteins encoded by the 184P1E2 genes, or by analogs, homologs or fragments thereof, have a variety of uses, including but not limited to generating antibodies and in methods for identifying ligands and other agents and cellular constituents that bind to a 184P1E2 gene product. Antibodies raised against a 184P1E2 protein or fragment thereof are useful in diagnostic and prognostic assays, and imaging methodologies in the management of human cancers characterized by expression of 184P1E2 protein, such as those listed in Table I. Such antibodies can be expressed intracellularly and used in methods of treating patients with such cancers. 184P1E2-related nucleic acids or proteins are also used in generating HTL or CTL responses.

Various immunological assays useful for the detection of 184P1E2 proteins are used, including but not limited to various types of radioimmunoassays, enzyme-linked immunosorbent assays (ELISA), enzyme-linked immunofluorescent assays (ELIFA), immunocytochemical methods, and the like. Antibodies can be labeled and used as immunological imaging reagents capable of detecting 184P1E2-expressing cells (e.g., in radioscintigraphic imaging methods). 184P1E2 proteins are also particularly useful in generating cancer vaccines, as further described herein.

IV.) 184P1E2 Antibodies

Another aspect of the invention provides antibodies that bind to 184P1E2-related proteins. Preferred antibodies specifically bind to a 184P1E2-related protein and do not bind (or bind weakly) to peptides or proteins that are not 184P1E2-related proteins. For example, antibodies that bind 184P1E2 can bind 184P1E2-related proteins such as the homologs or analogs thereof.

184P1E2 antibodies of the invention are particularly useful in cancer (see, e.g., Table I) diagnostic and prognostic assays, and imaging methodologies. Similarly, such antibodies are useful in the treatment, diagnosis, and/or prognosis of other cancers, to the extent 184P1E2 is also expressed or overexpressed in these other cancers. Moreover, intracellularly expressed antibodies (e.g., single chain antibodies) are therapeutically useful in treating cancers in which the expression of 184P1E2 is involved, such as advanced or metastatic prostate cancers.

The invention also provides various immunological assays useful for the detection and quantification of 184P1E2 and mutant 184P1E2-related proteins. Such assays can comprise one or more 184P1E2 antibodies capable of recognizing and binding a 184P1E2-related protein, as appropriate. These assays are performed within various immunological assay formats well known in the art, including but not limited to various types of radioimmunoassays, enzyme-linked immunosorbent assays (ELISA), enzyme-linked immunofluorescent assays (ELIFA), and the like.

Immunological non-antibody assays of the invention also comprise T cell immunogenicity assays (inhibitory or stimulatory) as well as major histocompatibility complex (MHC) binding assays.

In addition, immunological imaging methods capable of detecting prostate cancer and other cancers expressing 184P1E2 are also provided by the invention, including but not limited to radioscintigraphic imaging methods using labeled 184P1E2 antibodies. Such assays are clinically useful in the detection, monitoring, and prognosis of 184P1E2 expressing cancers such as prostate cancer.

184P1E2 antibodies are also used in methods for purifying a 184P1E2-related protein and for isolating 184P1E2 homologues and related molecules. For example, a method of purifying a 184P1E2-related protein comprises incubating a 184P1E2 antibody, which has been coupled to a solid matrix, with a lysate or other solution containing a 184P1E2-related protein under conditions that permit the 184P1E2 antibody to bind to the 184P1E2-related protein; washing the solid matrix to eliminate impurities; and eluting the 184P1E2-related protein from the coupled antibody. Other uses of 184P1E2 antibodies in accordance with the invention include generating anti-idiotypic antibodies that mimic a 184P1E2 protein.

Various methods for the preparation of antibodies are well known in the art. For example, antibodies can be prepared by immunizing a suitable mammalian host using a 184P1E2-related protein, peptide, or fragment, in isolated or immunoconjugated form (Antibodies: A Laboratory Manual, CSH Press, Eds., Harlow, and Lane (1988); Harlow, Antibodies, Cold Spring Harbor Press, NY (1989)). In addition, fusion proteins of 184P1E2 can also be used, such as a 184P1E2 GST-fusion protein. In a particular embodiment, a GST fusion protein comprising all or most of the amino acid sequence of FIG. 2 or FIG. 3 is produced, then used as an immunogen to generate appropriate antibodies. In another embodiment, a 184P1E2-related protein is synthesized and used as an immunogen.

In addition, naked DNA immunization techniques known in the art are used (with or without purified 184P1E2-related protein or 184P1E2 expressing cells) to generate an immune response to the encoded immunogen (for review, see Donnelly et al., 1997, Ann. Rev. Immunol. 15: 617-648).

The amino acid sequence of a 184P1E2 protein as shown in FIG. 2 or FIG. 3 can be analyzed to select specific regions of the 184P1E2 protein for generating antibodies. For example, hydrophobicity and hydrophilicity analyses of a 184P1E2 amino acid sequence are used to identify hydrophilic regions in the 184P1E2 structure. Regions of a 184P1E2 protein that show immunogenic structure, as well as other regions and domains, can readily be identified using various other methods known in the art, such as Chou-Fasman, Garnier-Robson, Kyte-Doolittle, Eisenberg, Karplus-Schultz or Jameson-Wolf analysis. Hydrophilicity profiles can be generated using the method of Hopp, T. P. and Woods, K. R., 1981, Proc. Natl. Acad. Sci. U.S.A. 78:3824-3828. Hydropathicity profiles can be generated using the method of Kyte, J. and Doolittle, R. F., 1982, J. Mol. Biol. 157:105-132. Percent (%) Accessible Residues profiles can be generated using the method of Janin J., 1979, Nature 277:491-492. Average Flexibility profiles can be generated using the method of Bhaskaran R., Ponnuswamy P. K., 1988, Int. J. Pept. Protein Res. 32:242-255. Beta-turn profiles can be generated using the method of Deleage, G., Roux B., 1987, Protein Engineering 1:289-294. Thus, each region identified by any of these programs or methods is within the scope of the present invention. Methods for the generation of 184P1E2 antibodies are further illustrated by way of the examples provided herein. Methods for preparing a protein or polypeptide for use as an immunogen are well known in the art. Also well known in the art are methods for preparing immunogenic conjugates of a protein with a carrier, such as BSA, KLH or other carrier protein. In some circumstances, direct conjugation using, for example, carbodiimide reagents are used; in other instances linking reagents such as those supplied by Pierce Chemical Co., Rockford, Ill., are effective. Administration of a 184P1E2 immunogen is often conducted by injection over a suitable time period and with use of a suitable adjuvant, as is understood in the art. During the immunization schedule, titers of antibodies can be taken to determine adequacy of antibody formation.

184P1E2 monoclonal antibodies can be produced by various means well known in the art. For example, immortalized cell lines that secrete a desired monoclonal antibody are prepared using the standard hybridoma technology of Kohler and Milstein or modifications that immortalize antibody-producing B cells, as is generally known. Immortalized cell lines that secrete the desired antibodies are screened by immunoassay in which the antigen is a 184P1E2-related protein. When the appropriate immortalized cell culture is identified, the cells can be expanded and antibodies produced either from in vitro cultures or from ascites fluid.

The antibodies or fragments of the invention can also be produced, by recombinant means. Regions that bind specifically to the desired regions of a 184P1E2 protein can also be produced in the context of chimeric or complementarity determining region (CDR) grafted antibodies of multiple species origin. Humanized or human 184P1E2 antibodies can also be produced, and are preferred for use in therapeutic contexts. Methods for humanizing murine and other non-human antibodies, by substituting one or more of the non-human antibody CDRs for corresponding human antibody sequences, are well known (see for example, Jones et al., 1986, Nature 321: 522-525; Riechmann et al., 1988, Nature 332: 323-327; Verhoeyen et al., 1988, Science 239: 1534-1536). See also, Carter et al., 1993, Proc. Natl. Acad. Sci. USA 89: 4285 and Sims et al., 1993, J. Immunol. 151: 2296.

Methods for producing fully human monoclonal antibodies include phage display and transgenic methods (for review, see Vaughan et al., 1998, Nature Biotechnology 16: 535-539). Fully human 184P1E2 monoclonal antibodies can be generated using cloning technologies employing large human Ig gene combinatorial libraries (i.e., phage display) (Griffiths and Hoogenboom, Building an in vitro immune system: human antibodies from phage display libraries. In: Protein Engineering of Antibody Molecules for Prophylactic and Therapeutic Applications in Man, Clark, M. (Ed.), Nottingham Academic, pp 45-64 (1993); Burton and Barbas, Human Antibodies from combinatorial libraries. Id., pp 65-82). Fully human 184P1E2 monoclonal antibodies can also be produced using transgenic mice engineered to contain human immunoglobulin gene loci as described in PCT Patent Application WO98/24893, Kucherlapati and Jakobovits et al., published Dec. 3, 1997 (see also, Jakobovits, 1998, Exp. Opin. Invest. Drugs 7(4): 607-614; U.S. Pat. No. 6,162,963 issued 19 Dec. 2000; U.S. Pat. No. 6,150,584 issued 12 Nov. 2000; and, U.S. Pat. No. 6,114,598 issued 5 Sep. 2000). This method avoids the in vitro manipulation required with phage display technology and efficiently produces high affinity authentic human antibodies.

Reactivity of 184P1E2 antibodies with a 184P1E2-related protein can be established by a number of well known means, including Western blot, immunoprecipitation, ELISA, and FACS analyses using, as appropriate, 184P1E2-related proteins, 184P1E2-expressing cells or extracts thereof. A 184P1E2 antibody or fragment thereof can be labeled with a detectable marker or conjugated to a second molecule. Suitable detectable markers include, but are not limited to, a radioisotope, a fluorescent compound, a bioluminescent compound, chemiluminescent compound, a metal chelator or an enzyme. Further, bi-specific antibodies specific for two or more 184P1E2 epitopes are generated using methods generally known in the art. Homodimeric antibodies can also be generated by cross-linking techniques known in the art (e.g., Wolff et al., Cancer Res. 53: 2560-2565).

V.) 184P1E2 Cellular Immune Responses

The mechanism by which T cells recognize antigens has been delineated. Efficacious peptide epitope vaccine compositions of the invention induce a therapeutic or prophylactic immune responses in very broad segments of the world-wide population. For an understanding of the value and efficacy of compositions of the invention that induce cellular immune responses, a brief review of immunology-related technology is provided.

A complex of an HLA molecule and a peptidic antigen acts as the ligand recognized by HLA-restricted T cells (Buus, S. et al., Cell 47:1071, 1986; Babbitt, B. P. et al., Nature 317:359, 1985; Townsend, A. and Bodmer, H., Annu. Rev. Immunol. 7:601, 1989; Germain, R. N., Annu. Rev. Immunol. 11:403, 1993). Through the study of single amino acid substituted antigen analogs and the sequencing of endogenously bound, naturally processed peptides, critical residues that correspond to motifs required for specific binding to HLA antigen molecules have been identified and are set forth in Table IV (see also, e.g., Southwood, et al., J. Immunol. 160:3363, 1998; Rammensee, et al., Immunogenetics 41:178, 1995; Rammensee et al., SYFPEITHI, access via World Wide Web at URL syfpeithi.bmi-heidelberg.com/; Sette, A. and Sidney, J. Curr. Opin. Immunol. 10:478, 1998; Engelhard, V. H., Curr. Opin. Immunol. 6:13, 1994; Sette, A. and Grey, H. M., Curr. Opin. Immunol. 4:79, 1992; Sinigaglia, F. and Hammer, J. Curr. Biol. 6:52, 1994; Ruppert et al., Cell 74:929-937, 1993; Kondo et al., J. Immunol. 155:4307-4312, 1995; Sidney et al., J. Immunol. 157:3480-3490, 1996; Sidney et al., Human Immunol. 45:79-93, 1996; Sette, A. and Sidney, J. Immunogenetics 1999 November; 50(3-4):201-12, Review).

Furthermore, x-ray crystallographic analyses of HLA-peptide complexes have revealed pockets within the peptide binding cleft/groove of HLA molecules which accommodate, in an allele-specific mode, residues borne by peptide ligands; these residues in turn determine the HLA binding capacity of the peptides in which they are present. (See, e.g., Madden, D. R. Annu. Rev. Immunol. 13:587, 1995; Smith, et al., Immunity 4:203, 1996; Fremont et al., Immunity 8:305, 1998; Stern et al., Structure 2:245, 1994; Jones, E. Y. Curr. Opin. Immunol. 9:75, 1997; Brown, J. H. et al., Nature 364:33, 1993; Guo, H. C. et al., Proc. Natl. Acad. Sci. USA 90:8053, 1993; Guo, H. C. et al., Nature 360:364, 1992; Silver, M. L. et al., Nature 360:367, 1992; Matsumura, M. et al., Science 257:927, 1992; Madden et al., Cell 70:1035, 1992; Fremont, D. H. et al., Science 257:919, 1992; Saper, M. A., Bjorkman, P. J. and Wiley, D.C., J. Mol. Biol. 219:277, 1991.)

Accordingly, the definition of class I and class II allele-specific HLA binding motifs, or class I or class II supermotifs allows identification of regions within a protein that are correlated with binding to particular HLA antigen(s).

Thus, by a process of HLA motif identification, candidates for epitope-based vaccines have been identified; such candidates can be further evaluated by HLA-peptide binding assays to determine binding affinity and/or the time period of association of the epitope and its corresponding HLA molecule. Additional confirmatory work can be performed to select, amongst these vaccine candidates, epitopes with preferred characteristics in terms of population coverage, and/or immunogenicity.

Various strategies can be utilized to evaluate cellular immunogenicity, including:

1) Evaluation of primary T cell cultures from normal individuals (see, e.g., Wentworth, P. A. et al., Mol. Immunol. 32:603, 1995; Celis, E. et al., Proc. Natl. Acad. Sci. USA 91:2105, 1994; Tsai, V. et al., J. Immunol. 158:1796, 1997; Kawashima, I. et al., Human Immunol. 59:1, 1998). This procedure involves the stimulation of peripheral blood lymphocytes (PBL) from normal subjects with a test peptide in the presence of antigen presenting cells in vitro over a period of several weeks. T cells specific for the peptide become activated during this time and are detected using, e.g., a lymphokine- or ⁵¹Cr-release assay involving peptide sensitized target cells.

2) Immunization of HLA transgenic mice (see, e.g., Wentworth, P. A. et al., J. Immunol. 26:97, 1996; Wentworth, P. A. et al., Int. Immunol. 8:651, 1996; Alexander, J. et al., J. Immunol. 159:4753, 1997). For example, in such methods peptides in incomplete Freund's adjuvant are administered subcutaneously to HLA transgenic mice. Several weeks following immunization, splenocytes are removed and cultured in vitro in the presence of test peptide for approximately one week. Peptide-specific T cells are detected using, e.g., a ⁵¹Cr-release assay involving peptide sensitized target cells and target cells expressing endogenously generated antigen.

3) Demonstration of recall T cell responses from immune individuals who have been either effectively vaccinated and/or from chronically ill patients (see, e.g., Rehermann, B. et al., J. Exp. Med. 181:1047, 1995; Doolan, D. L. et al., Immunity 7:97, 1997; Bertoni, R. et al., J. Clin. Invest. 100:503, 1997; Threlkeld, S. C. et al., J. Immunol. 159:1648, 1997; Diepolder, H. M. et al., J. Virol. 71:6011, 1997). Accordingly, recall responses are detected by culturing PBL from subjects that have been exposed to the antigen due to disease and thus have generated an immune response “naturally”, or from patients who were vaccinated against the antigen. PBL from subjects are cultured in vitro for 1-2 weeks in the presence of test peptide plus antigen presenting cells (APC) to allow activation of “memory” T cells, as compared to “naive” T cells. At the end of the culture period, T cell activity is detected using assays including ⁵¹Cr release involving peptide-sensitized targets, T cell proliferation, or lymphokine release.

VI.) 184P1E2 Transgenic Animals

Nucleic acids that encode a 184P1E2-related protein can also be used to generate either transgenic animals or “knock out” animals that, in turn, are useful in the development and screening of therapeutically useful reagents. In accordance with established techniques, cDNA encoding 184P1E2 can be used to clone genomic DNA that encodes 184P1E2. The cloned genomic sequences can then be used to generate transgenic animals containing cells that express DNA that encode 184P1E2. Methods for generating transgenic animals, particularly animals such as mice or rats, have become conventional in the art and are described, for example, in U.S. Pat. No. 4,736,866 issued 12 Apr. 1988, and U.S. Pat. No. 4,870,009 issued 26 Sep. 1989. Typically, particular cells would be targeted for 184P1E2 transgene incorporation with tissue-specific enhancers.

Transgenic animals that include a copy of a transgene encoding 184P1E2 can be used to examine the effect of increased expression of DNA that encodes 184P1E2. Such animals can be used as tester animals for reagents thought to confer protection from, for example, pathological conditions associated with its overexpression. In accordance with this aspect of the invention, an animal is treated with a reagent and a reduced incidence of a pathological condition, compared to untreated animals that bear the transgene, would indicate a potential therapeutic intervention for the pathological condition.

Alternatively, non-human homologues of 184P1E2 can be used to construct a 184P1E2 “knock out” animal that has a defective or altered gene encoding 184P1E2 as a result of homologous recombination between the endogenous gene encoding 184P1E2 and altered genomic DNA encoding 184P1E2 introduced into an embryonic cell of the animal. For example, cDNA that encodes 184P1E2 can be used to clone genomic DNA encoding 184P1E2 in accordance with established techniques. A portion of the genomic DNA encoding 184P1E2 can be deleted or replaced with another gene, such as a gene encoding a selectable marker that can be used to monitor integration. Typically, several kilobases of unaltered flanking DNA (both at the 5′ and 3′ ends) are included in the vector (see, e.g., Thomas and Capecchi, Cell, 51:503 (1987) for a description of homologous recombination vectors). The vector is introduced into an embryonic stem cell line (e.g., by electroporation) and cells in which the introduced DNA has homologously recombined with the endogenous DNA are selected (see, e.g., Li et al., Cell, 69:915 (1992)). The selected cells are then injected into a blastocyst of an animal (e.g., a mouse or rat) to form aggregation chimeras (see, e.g., Bradley, in Teratocarcinomas and Embryonic Stem Cells: A Practical Approach, E. J. Robertson, ed. (IRL, Oxford, 1987), pp. 113-152). A chimeric embryo can then be implanted into a suitable pseudopregnant female foster animal, and the embryo brought to term to create a “knock out” animal. Progeny harboring the homologously recombined DNA in their germ cells can be identified by standard techniques and used to breed animals in which all cells of the animal contain the homologously recombined DNA. Knock out animals can be characterized, for example, for their ability to defend against certain pathological conditions or for their development of pathological conditions due to absence of a 184P1E2 polypeptide.

VII.) Methods for the Detection of 184P1E2

Another aspect of the present invention relates to methods for detecting 184P1E2 polynucleotides and 184P1E2-related proteins, as well as methods for identifying a cell that expresses 184P1E2. The expression profile of 184P1E2 makes it a diagnostic marker for metastasized disease. Accordingly, the status of 184P1E2 gene products provides information useful for predicting a variety of factors including susceptibility to advanced stage disease, rate of progression, and/or tumor aggressiveness. As discussed in detail herein, the status of 184P1E2 gene products in patient samples can be analyzed by a variety protocols that are well known in the art including immunohistochemical analysis, the variety of Northern blotting techniques including in situ hybridization, RT-PCR analysis (for example on laser capture micro-dissected samples), Western blot analysis and tissue array analysis.

More particularly, the invention provides assays for the detection of 184P1E2 polynucleotides in a biological sample, such as serum, bone, prostate, and other tissues, urine, semen, cell preparations, and the like. Detectable 184P1E2 polynucleotides include, for example, a 184P1E2 gene or fragment thereof, 184P1E2 mRNA, alternative splice variant 184P1E2 mRNAs, and recombinant DNA or RNA molecules that contain a 184P1E2 polynucleotide. A number of methods for amplifying and/or detecting the presence of 184P1E2 polynucleotides are well known in the art and can be employed in the practice of this aspect of the invention.

In one embodiment, a method for detecting a 184P1E2 mRNA in a biological sample comprises producing cDNA from the sample by reverse transcription using at least one primer; amplifying the cDNA so produced using a 184P1E2 polynucleotides as sense and antisense primers to amplify 184P1E2 cDNAs therein; and detecting the presence of the amplified 184P1E2 cDNA. Optionally, the sequence of the amplified 184P1E2 cDNA can be determined.

In another embodiment, a method of detecting a 184P1E2 gene in a biological sample comprises first isolating genomic DNA from the sample; amplifying the isolated genomic DNA using 184P1E2 polynucleotides as sense and antisense primers; and detecting the presence of the amplified 184P1E2 gene. Any number of appropriate sense and antisense probe combinations can be designed from a 184P1E2 nucleotide sequence (see, e.g., FIG. 2) and used for this purpose.

The invention also provides assays for detecting the presence of a 184P1E2 protein in a tissue or other biological sample such as serum, semen, bone, prostate, urine, cell preparations, and the like. Methods for detecting a 184P1E2-related protein are also well known and include, for example, immunoprecipitation, immunohistochemical analysis, Western blot analysis, molecular binding assays, ELISA, ELIFA and the like. For example, a method of detecting the presence of a 184P1E2-related protein in a biological sample comprises first contacting the sample with a 184P1E2 antibody, a 184P1E2-reactive fragment thereof, or a recombinant protein containing an antigen binding region of a 184P1E2 antibody; and then detecting the binding of 184P1E2-related protein in the sample.

Methods for identifying a cell that expresses 184P1E2 are also within the scope of the invention. In one embodiment, an assay for identifying a cell that expresses a 184P1E2 gene comprises detecting the presence of 184P1E2 mRNA in the cell. Methods for the detection of particular mRNAs in cells are well known and include, for example, hybridization assays using complementary DNA probes (such as in situ hybridization using labeled 184P1E2 riboprobes, Northern blot and related techniques) and various nucleic acid amplification assays (such as RT-PCR using complementary primers specific for 184P1E2, and other amplification type detection methods, such as, for example, branched DNA, SISBA, TMA and the like). Alternatively, an assay for identifying a cell that expresses a 184P1E2 gene comprises detecting the presence of 184P1E2-related protein in the cell or secreted by the cell. Various methods for the detection of proteins are well known in the art and are employed for the detection of 184P1E2-related proteins and cells that express 184P1E2-related proteins.

184P1E2 expression analysis is also useful as a tool for identifying and evaluating agents that modulate 184P1E2 gene expression. For example, 184P1E2 expression is significantly upregulated in prostate cancer, and is expressed in cancers of the tissues listed in Table I. Identification of a molecule or biological agent that inhibits 184P1E2 expression or over-expression in cancer cells is of therapeutic value. For example, such an agent can be identified by using a screen that quantifies 184P1E2 expression by RT-PCR, nucleic acid hybridization or antibody binding.

VIII.) Methods for Monitoring the Status of 184P1E2-Related Genes and their Products

Oncogenesis is known to be a multistep process where cellular growth becomes progressively dysregulated and cells progress from a normal physiological state to precancerous and then cancerous states (see, e.g., Alers et al., Lab Invest. 77(5): 437-438 (1997) and Isaacs et al., Cancer Surv. 23: 19-32 (1995)). In this context, examining a biological sample for evidence of dysregulated cell growth (such as aberrant 184P1E2 expression in cancers) allows for early detection of such aberrant physiology, before a pathologic state such as cancer has progressed to a stage that therapeutic options are more limited and or the prognosis is worse. In such examinations, the status of 184P1E2 in a biological sample of interest can be compared, for example, to the status of 184P1E2 in a corresponding normal sample (e.g. a sample from that individual or alternatively another individual that is not affected by a pathology). An alteration in the status of 184P1E2 in the biological sample (as compared to the normal sample) provides evidence of dysregulated cellular growth. In addition to using a biological sample that is not affected by a pathology as a normal sample, one can also use a predetermined normative value such as a predetermined normal level of mRNA expression (see, e.g., Grever et al., J. Comp. Neurol. 1996 Dec. 9; 376(2): 306-14 and U.S. Pat. No. 5,837,501) to compare 184P1E2 status in a sample.

The term “status” in this context is used according to its art accepted meaning and refers to the condition or state of a gene and its products. Typically, skilled artisans use a number of parameters to evaluate the condition or state of a gene and its products. These include, but are not limited to the location of expressed gene products (including the location of 184P1E2 expressing cells) as well as the level, and biological activity of expressed gene products (such as 184P1E2 mRNA, polynucleotides and polypeptides). Typically, an alteration in the status of 184P1E2 comprises a change in the location of 184P1E2 and/or 184P1E2 expressing cells and/or an increase in 184P1E2 mRNA and/or protein expression.

184P1E2 status in a sample can be analyzed by a number of means well known in the art, including without limitation, immunohistochemical analysis, in situ hybridization, RT-PCR analysis on laser capture micro-dissected samples, Western blot analysis, and tissue array analysis. Typical protocols for evaluating the status of a 184P1E2 gene and gene products are found, for example in Ausubel et al. eds., 1995, Current Protocols In Molecular Biology, Units 2 (Northern Blotting), 4 (Southern Blotting), 15 (Immunoblotting) and 18 (PCR Analysis). Thus, the status of 184P1E2 in a biological sample is evaluated by various methods utilized by skilled artisans including, but not limited to genomic Southern analysis (to examine, for example perturbations in a 184P1E2 gene), Northern analysis and/or PCR analysis of 184P1E2 mRNA (to examine, for example alterations in the polynucleotide sequences or expression levels of 184P1E2 mRNAs), and, Western and/or immunohistochemical analysis (to examine, for example alterations in polypeptide sequences, alterations in polypeptide localization within a sample, alterations in expression levels of 184P1E2 proteins and/or associations of 184P1E2 proteins with polypeptide binding partners). Detectable 184P1E2 polynucleotides include, for example, a 184P1E2 gene or fragment thereof, 184P1E2 mRNA, alternative splice variants, 184P1E2 mRNAs, and recombinant DNA or RNA molecules containing a 184P1E2 polynucleotide.

The expression profile of 184P1E2 makes it a diagnostic marker for local and/or metastasized disease, and provides information on the growth or oncogenic potential of a biological sample. In particular, the status of 184P1E2 provides information useful for predicting susceptibility to particular disease stages, progression, and/or tumor aggressiveness. The invention provides methods and assays for determining 184P1E2 status and diagnosing cancers that express 184P1E2, such as cancers of the tissues listed in Table 1. For example, because 184P1E2 mRNA is so highly expressed in prostate and other cancers relative to normal prostate tissue, assays that evaluate the levels of 184P1E2 mRNA transcripts or proteins in a biological sample can be used to diagnose a disease associated with 184P1E2 dysregulation, and can provide prognostic information useful in defining appropriate therapeutic options.

The expression status of 184P1E2 provides information including the presence, stage and location of dysplastic, precancerous and cancerous cells, predicting susceptibility to various stages of disease, and/or for gauging tumor aggressiveness. Moreover, the expression profile makes it useful as an imaging reagent for metastasized disease. Consequently, an aspect of the invention is directed to the various molecular prognostic and diagnostic methods for examining the status of 184P1E2 in biological samples such as those from individuals suffering from, or suspected of suffering from a pathology characterized by dysregulated cellular growth, such as cancer.

As described above, the status of 184P1E2 in a biological sample can be examined by a number of well-known procedures in the art. For example, the status of 184P1E2 in a biological sample taken from a specific location in the body can be examined by evaluating the sample for the presence or absence of 184P1E2 expressing cells (e.g. those that express 184P1E2 mRNAs or proteins). This examination can provide evidence of dysregulated cellular growth, for example, when 184P1E2-expressing cells are found in a biological sample that does not normally contain such cells (such as a lymph node), because such alterations in the status of 184P1E2 in a biological sample are often associated with dysregulated cellular growth. Specifically, one indicator of dysregulated cellular growth is the metastases of cancer cells from an organ of origin (such as the prostate) to a different area of the body (such as a lymph node). In this context, evidence of dysregulated cellular growth is important for example because occult lymph node metastases can be detected in a substantial proportion of patients with prostate cancer, and such metastases are associated with known predictors of disease progression (see, e.g., Murphy et al., Prostate 42(4): 315-317 (2000);Su et al., Semin. Surg. Oncol. 18(1): 17-28 (2000) and Freeman et al., J Urol 1995 August 154(2 Pt 1):474-8).

In one aspect, the invention provides methods for monitoring 184P1E2 gene products by determining the status of 184P1E2 gene products expressed by cells from an individual suspected of having a disease associated with dysregulated cell growth (such as hyperplasia or cancer) and then comparing the status so determined to the status of 184P1E2 gene products in a corresponding normal sample. The presence of aberrant 184P1E2 gene products in the test sample relative to the normal sample provides an indication of the presence of dysregulated cell growth within the cells of the individual.

In another aspect, the invention provides assays useful in determining the presence of cancer in an individual, comprising detecting a significant increase in 184P1E2 mRNA or protein expression in a test cell or tissue sample relative to expression levels in the corresponding normal cell or tissue. The presence of 184P1E2 mRNA can, for example, be evaluated in tissues including but not limited to those listed in Table I. The presence of significant 184P1E2 expression in any of these tissues is useful to indicate the emergence, presence and/or severity of a cancer, since the corresponding normal tissues do not express 184P1E2 mRNA or express it at lower levels.

In a related embodiment, 184P1E2 status is determined at the protein level rather than at the nucleic acid level. For example, such a method comprises determining the level of 184P1E2 protein expressed by cells in a test tissue sample and comparing the level so determined to the level of 184P1E2 expressed in a corresponding normal sample. In one embodiment, the presence of 184P1E2 protein is evaluated, for example, using immunohistochemical methods. 184P1E2 antibodies or binding partners capable of detecting 184P1E2 protein expression are used in a variety of assay formats well known in the art for this purpose.

In a further embodiment, one can evaluate the status of 184P1E2 nucleotide and amino acid sequences in a biological sample in order to identify perturbations in the structure of these molecules. These perturbations can include insertions, deletions, substitutions and the like. Such evaluations are useful because perturbations in the nucleotide and amino acid sequences are observed in a large number of proteins associated with a growth dysregulated phenotype (see, e.g., Marrogi et al., 1999, J. Cutan. Pathol. 26(8):369-378). For example, a mutation in the sequence of 184P1E2 may be indicative of the presence or promotion of a tumor. Such assays therefore have diagnostic and predictive value where a mutation in 184P1E2 indicates a potential loss of function or increase in tumor growth.

A wide variety of assays for observing perturbations in nucleotide and amino acid sequences are well known in the art. For example, the size and structure of nucleic acid or amino acid sequences of 184P1E2 gene products are observed by the Northern, Southern, Western, PCR and DNA sequencing protocols discussed herein. In addition, other methods for observing perturbations in nucleotide and amino acid sequences such as single strand conformation polymorphism analysis are well known in the art (see, e.g., U.S. Pat. No. 5,382,510 issued 7 Sep. 1999, and U.S. Pat. No. 5,952,170 issued 17 Jan. 1995).

Additionally, one can examine the methylation status of a 184P1E2 gene in a biological sample. Aberrant demethylation and/or hypermethylation of CpG islands in gene 5′ regulatory regions frequently occurs in immortalized and transformed cells, and can result in altered expression of various genes. For example, promoter hypermethylation of the pi-class glutathione S-transferase (a protein expressed in normal prostate but not expressed in >90% of prostate carcinomas) appears to permanently silence transcription of this gene and is the most frequently detected genomic alteration in prostate carcinomas (De Marzo et al., Am. J. Pathol. 155(6): 1985-1992 (1999)). In addition, this alteration is present in at least 70% of cases of high-grade prostatic intraepithelial neoplasia (PIN) (Brooks et al., Cancer Epidemiol. Biomarkers Prev., 1998, 7:531-536). In another example, expression of the LAGE-I tumor specific gene (which is not expressed in normal prostate but is expressed in 25-50% of prostate cancers) is induced by deoxy-azacytidine in lymphoblastoid cells, suggesting that tumoral expression is due to demethylation (Lethe et al., Int. J. Cancer 76(6): 903-908 (1998)). A variety of assays for examining methylation status of a gene are well known in the art. For example, one can utilize, in Southern hybridization approaches, methylation-sensitive restriction enzymes that cannot cleave sequences that contain methylated CpG sites to assess the methylation status of CpG islands. In addition, MSP (methylation specific PCR) can rapidly profile the methylation status of all the CpG sites present in a CpG island of a given gene. This procedure involves initial modification of DNA by sodium bisulfite (which will convert all unmethylated cytosines to uracil) followed by amplification using primers specific for methylated versus unmethylated DNA. Protocols involving methylation interference can also be found for example in Current Protocols In Molecular Biology, Unit 12, Frederick M. Ausubel et al. eds., 1995.

Gene amplification is an additional method for assessing the status of 184P1E2. Gene amplification is measured in a sample directly, for example, by conventional Southern blotting or Northern blotting to quantitate the transcription of mRNA (Thomas, 1980, Proc. Natl. Acad. Sci. USA, 77:5201-5205), dot blotting (DNA analysis), or in situ hybridization, using an appropriately labeled probe, based on the sequences provided herein. Alternatively, antibodies are employed that recognize specific duplexes, including DNA duplexes, RNA duplexes, and DNA-RNA hybrid duplexes or DNA-protein duplexes. The antibodies in turn are labeled and the assay carried out where the duplex is bound to a surface, so that upon the formation of duplex on the surface, the presence of antibody bound to the duplex can be detected.

Biopsied tissue or peripheral blood can be conveniently assayed for the presence of cancer cells using for example, Northern, dot blot or RT-PCR analysis to detect 184P1E2 expression. The presence of RT-PCR amplifiable 184P1E2 mRNA provides an indication of the presence of cancer. RT-PCR assays are well known in the art. RT-PCR detection assays for tumor cells in peripheral blood are currently being evaluated for use in the diagnosis and management of a number of human solid tumors. In the prostate cancer field, these include RT-PCR assays for the detection of cells expressing PSA and PSM (Verkaik et al., 1997, Urol. Res. 25:373-384; Ghossein et al., 1995, J. Clin. Oncol. 13:1195-2000; Heston et al., 1995, Clin. Chem. 41:1687-1688).

A further aspect of the invention is an assessment of the susceptibility that an individual has for developing cancer. In one embodiment, a method for predicting susceptibility to cancer comprises detecting 184P1E2 mRNA or 184P1E2 protein in a tissue sample, its presence indicating susceptibility to cancer, wherein the degree of 184P1E2 mRNA expression correlates to the degree of susceptibility. In a specific embodiment, the presence of 184P1E2 in prostate or other tissue is examined, with the presence of 184P1E2 in the sample providing an indication of prostate cancer susceptibility (or the emergence or existence of a prostate tumor). Similarly, one can evaluate the integrity 184P1E2 nucleotide and amino acid sequences in a biological sample, in order to identify perturbations in the structure of these molecules such as insertions, deletions, substitutions and the like. The presence of one or more perturbations in 184P1E2 gene products in the sample is an indication of cancer susceptibility (or the emergence or existence of a tumor).

The invention also comprises methods for gauging tumor aggressiveness. In one embodiment, a method for gauging aggressiveness of a tumor comprises determining the level of 184P1E2 mRNA or 184P1E2 protein expressed by tumor cells, comparing the level so determined to the level of 184P1E2 mRNA or 184P1E2 protein expressed in a corresponding normal tissue taken from the same individual or a normal tissue reference sample, wherein the degree of 184P1E2 mRNA or 184P1E2 protein expression in the tumor sample relative to the normal sample indicates the degree of aggressiveness. In a specific embodiment, aggressiveness of a tumor is evaluated by determining the extent to which 184P1E2 is expressed in the tumor cells, with higher expression levels indicating more aggressive tumors. Another embodiment is the evaluation of the integrity of 184P1E2 nucleotide and amino acid sequences in a biological sample, in order to identify perturbations in the structure of these molecules such as insertions, deletions, substitutions and the like. The presence of one or more perturbations indicates more aggressive tumors.

Another embodiment of the invention is directed to methods for observing the progression of a malignancy in an individual over time. In one embodiment, methods for observing the progression of a malignancy in an individual over time comprise determining the level of 184P1E2 mRNA or 184P1E2 protein expressed by cells in a sample of the tumor, comparing the level so determined to the level of 184P1E2 mRNA or 184P1E2 protein expressed in an equivalent tissue sample taken from the same individual at a different time, wherein the degree of 184P1E2 mRNA or 184P1E2 protein expression in the tumor sample over time provides information on the progression of the cancer. In a specific embodiment, the progression of a cancer is evaluated by determining 184P1E2 expression in the tumor cells over time, where increased expression over time indicates a progression of the cancer. Also, one can evaluate the integrity 184P1E2 nucleotide and amino acid sequences in a biological sample in order to identify perturbations in the structure of these molecules such as insertions, deletions, substitutions and the like, where the presence of one or more perturbations indicates a progression of the cancer.

The above diagnostic approaches can be combined with any one of a wide variety of prognostic and diagnostic protocols known in the art. For example, another embodiment of the invention is directed to methods for observing a coincidence between the expression of 184P1E2 gene and 184P1E2 gene products (or perturbations in 184P1E2 gene and 184P1E2 gene products) and a factor that is associated with malignancy, as a means for diagnosing and prognosticating the status of a tissue sample. A wide variety of factors associated with malignancy can be utilized, such as the expression of genes associated with malignancy (e.g. PSA, PSCA and PSM expression for prostate cancer etc.) as well as gross cytological observations (see, e.g., Bocking et al., 1984, Anal. Quant. Cytol. 6(2):74-88; Epstein, 1995, Hum. Pathol. 26(2):223-9; Thorson et al., 1998, Mod. Pathol. 11(6):543-51; Baisden et al., 1999, Am. J. Surg. Pathol. 23(8):918-24). Methods for observing a coincidence between the expression of 184P1E2 gene and 184P1E2 gene products (or perturbations in 184P1E2 gene and 184P1E2 gene products) and another factor that is associated with malignancy are useful, for example, because the presence of a set of specific factors that coincide with disease provides information crucial for diagnosing and prognosticating the status of a tissue sample.

In one embodiment, methods for observing a coincidence between the expression of 184P1E2 gene and 184P1E2 gene products (or perturbations in 184P1E2 gene and 184P1E2 gene products) and another factor associated with malignancy entails detecting the overexpression of 184P1E2 mRNA or protein in a tissue sample, detecting the overexpression of PSA mRNA or protein in a tissue sample (or PSCA or PSM expression), and observing a coincidence of 184P1E2 mRNA or protein and PSA mRNA or protein overexpression (or PSCA or PSM expression). In a specific embodiment, the expression of 184P1E2 and PSA mRNA in prostate tissue is examined, where the coincidence of 184P1E2 and PSA mRNA overexpression in the sample indicates the existence of prostate cancer, prostate cancer susceptibility or the emergence or status of a prostate tumor.

Methods for detecting and quantifying the expression of 184P1E2 mRNA or protein are described herein, and standard nucleic acid and protein detection and quantification technologies are well known in the art. Standard methods for the detection and quantification of 184P1E2 mRNA include in situ hybridization using labeled 184P1E2 riboprobes, Northern blot and related techniques using 184P1E2 polynucleotide probes, RT-PCR analysis using primers specific for 184P1E2, and other amplification type detection methods, such as, for example, branched DNA, SISBA, TMA and the like. In a specific embodiment, semi-quantitative RT-PCR is used to detect and quantify 184P1E2 mRNA expression. Any number of primers capable of amplifying 184P1E2 can be used for this purpose, including but not limited to the various primer sets specifically described herein. In a specific embodiment, polyclonal or monoclonal antibodies specifically reactive with the wild-type 184P1E2 protein can be used in an immunohistochemical assay of biopsied tissue.

IX.) Identification of Molecules that Interact with 184P1E2

The 184P1E2 protein and nucleic acid sequences disclosed herein allow a skilled artisan to identify proteins, small molecules and other agents that interact with 184P1E2, as well as pathways activated by 184P1E2 via any one of a variety of art accepted protocols. For example, one can utilize one of the so-called interaction trap systems (also referred to as the “two-hybrid assay”). In such systems, molecules interact and reconstitute a transcription factor which directs expression of a reporter gene, whereupon the expression of the reporter gene is assayed. Other systems identify protein-protein interactions in vivo through reconstitution of a eukaryotic transcriptional activator, see, e.g., U.S. Pat. No. 5,955,280 issued 21 Sep. 1999, U.S. Pat. No. 5,925,523 issued 20 Jul. 1999, U.S. Pat. No. 5,846,722 issued 8 Dec. 1998 and U.S. Pat. No. 6,004,746 issued 21 Dec. 1999. Algorithms are also available in the art for genome-based predictions of protein function (see, e.g., Marcotte, et al., Nature 402: 4 Nov. 1999, 83-86).

Alternatively one can screen peptide libraries to identify molecules that interact with 184P1E2 protein sequences. In such methods, peptides that bind to 184P1E2 are identified by screening libraries that encode a random or controlled collection of amino acids. Peptides encoded by the libraries are expressed as fusion proteins of bacteriophage coat proteins, the bacteriophage particles are then screened against the 184P1E2 protein(s).

Accordingly, peptides having a wide variety of uses, such as therapeutic, prognostic or diagnostic reagents, are thus identified without any prior information on the structure of the expected ligand or receptor molecule. Typical peptide libraries and screening methods that can be used to identify molecules that interact with 184P1E2 protein sequences are disclosed for example in U.S. Pat. No. 5,723,286 issued 3 Mar. 1998 and U.S. Pat. No. 5,733,731 issued 31 Mar. 1998.

Alternatively, cell lines that express 184P1E2 are used to identify protein-protein interactions mediated by 184P1E2. Such interactions can be examined using immunoprecipitation techniques (see, e.g., Hamilton B. J., et al. Biochem. Biophys. Res. Commun. 1999, 261:646-51). 184P1E2 protein can be immunoprecipitated from 184P1E2-expressing cell lines using anti-184P1E2 antibodies. Alternatively, antibodies against His-tag can be used in a cell line engineered to express fusions of 184P1E2 and a His-tag (vectors mentioned above). The immunoprecipitated complex can be examined for protein association by procedures such as Western blotting, ³⁵S-methionine labeling of proteins, protein microsequencing, silver staining and two-dimensional gel electrophoresis.

Small molecules and ligands that interact with 184P1E2 can be identified through related embodiments of such screening assays. For example, small molecules can be identified that interfere with protein function, including molecules that interfere with 184P1E2's ability to mediate phosphorylation and de-phosphorylation, interaction with DNA or RNA molecules as an indication of regulation of cell cycles, second messenger signaling or tumorigenesis. Similarly, small molecules that modulate 184P1E2-related ion channel, protein pump, or cell communication functions are identified and used to treat patients that have a cancer that expresses 184P1E2 (see, e.g., Hille, B., Ionic Channels of Excitable Membranes 2^(nd) Ed., Sinauer Assoc., Sunderland, Mass., 1992). Moreover, ligands that regulate 184P1E2 function can be identified based on their ability to bind 184P1E2 and activate a reporter construct. Typical methods are discussed for example in U.S. Pat. No. 5,928,868 issued 27 Jul. 1999, and include methods for forming hybrid ligands in which at least one ligand is a small molecule. In an illustrative embodiment, cells engineered to express a fusion protein of 184P1E2 and a DNA-binding protein are used to co-express a fusion protein of a hybrid ligand/small molecule and a cDNA library transcriptional activator protein. The cells further contain a reporter gene, the expression of which is conditioned on the proximity of the first and second fusion proteins to each other, an event that occurs only if the hybrid ligand binds to target sites on both hybrid proteins. Those cells that express the reporter gene are selected and the unknown small molecule or the unknown ligand is identified. This method provides a means of identifying modulators which activate or inhibit 184P1E2.

An embodiment of this invention comprises a method of screening for a molecule that interacts with a 184P1E2 amino acid sequence shown in FIG. 2 or FIG. 3, comprising the steps of contacting a population of molecules with a 184P1E2 amino acid sequence, allowing the population of molecules and the 184P1E2 amino acid sequence to interact under conditions that facilitate an interaction, determining the presence of a molecule that interacts with the 184P1E2 amino acid sequence, and then separating molecules that do not interact with the 184P1E2 amino acid sequence from molecules that do. In a specific embodiment, the method further comprises purifying, characterizing and identifying a molecule that interacts with the 184P1E2 amino acid sequence. The identified molecule can be used to modulate a function performed by 184P1E2. In a preferred embodiment, the 184P1E2 amino acid sequence is contacted with a library of peptides.

X.) Therapeutic Methods and Compositions

The identification of 184P1E2 as a protein that is normally expressed in a restricted set of tissues, but which is also expressed in prostate and other cancers, opens a number of therapeutic approaches to the treatment of such cancers. As contemplated herein, 184P1E2 functions as a transcription factor involved in activating tumor-promoting genes or repressing genes that block tumorigenesis.

Accordingly, therapeutic approaches that inhibit the activity of a 184P1E2 protein are useful for patients suffering from a cancer that expresses 184P1E2. These therapeutic approaches generally fall into two classes. One class comprises various methods for inhibiting the binding or association of a 184P1E2 protein with its binding partner or with other proteins. Another class comprises a variety of methods for inhibiting the transcription of a 184P1E2 gene or translation of 184P1E2 mRNA.

X.A.) Anti-Cancer Vaccines

The invention provides cancer vaccines comprising a 184P1E2-related protein or 184P1E2-related nucleic acid. In view of the expression of 184P1E2, cancer vaccines prevent and/or treat 184P1E2-expressing cancers with minimal or no effects on non-target tissues. The use of a tumor antigen in a vaccine that generates humoral and/or cell-mediated immune responses as anti-cancer therapy is well known in the art and has been employed in prostate cancer using human PSMA and rodent PAP immunogens (Hodge et al., 1995, Int. J. Cancer 63:231-237; Fong et al., 1997, J. Immunol. 159:3113-3117).

Such methods can be readily practiced by employing a 184P1E2-related protein, or a 184P1E2-encoding nucleic acid molecule and recombinant vectors capable of expressing and presenting the 184P1E2 immunogen (which typically comprises a number of antibody or T cell epitopes). Skilled artisans understand that a wide variety of vaccine systems for delivery of immunoreactive epitopes are known in the art (see, e.g., Heryln et al., Ann Med 1999 February 31(1):66-78; Maruyama et al., Cancer Immunol Immunother 2000 June 49(3):123-32) Briefly, such methods of generating an immune response (e.g. humoral and/or cell-mediated) in a mammal, comprise the steps of: exposing the mammal's immune system to an immunoreactive epitope (e.g. an epitope present in a 184P1E2 protein shown in FIG. 3 or analog or homolog thereof) so that the mammal generates an immune response that is specific for that epitope (e.g. generates antibodies that specifically recognize that epitope). In a preferred method, a 184P1E2 immunogen contains a biological motif, see e.g., Tables V-XVIII and XXII-LI, or a peptide of a size range from 184P1E2 indicated in FIG. 5, FIG. 6, FIG. 7, FIG. 8, and FIG. 9.

The entire 184P1E2 protein, immunogenic regions or epitopes thereof can be combined and delivered by various means. Such vaccine compositions can include, for example, lipopeptides (e.g., Vitiello, A. et al., J. Clin. Invest. 95:341, 1995), peptide compositions encapsulated in poly(DL-lactide-co-glycolide) (“PLG”) microspheres (see, e.g., Eldridge, et al., Molec. Immunol. 28:287-294, 1991: Alonso et al., Vaccine 12:299-306, 1994; Jones et al., Vaccine 13:675-681, 1995), peptide compositions contained in immune stimulating complexes (ISCOMS) (see, e.g., Takahashi et al., Nature 344:873-875, 1990; Hu et al., Clin Exp Immunol. 113:235-243, 1998), multiple antigen peptide systems (MAPs) (see e.g., Tam, J. P., Proc. Natl. Acad. Sci. U.S.A. 85:5409-5413, 1988; Tam, J. P., J. Immunol. Methods 196:17-32, 1996), peptides formulated as multivalent peptides; peptides for use in ballistic delivery systems, typically crystallized peptides, viral delivery vectors (Perkus, M. E. et al., In: Concepts in vaccine development, Kaufmann, S. H. E., ed., p. 379, 1996; Chakrabarti, S. et al., Nature 320:535, 1986; Hu, S. L. et al., Nature 320:537, 1986; Kieny, M.-P. et al., AIDS Bio/Technology 4:790, 1986; Top, F. H. et al., J. Infect. Dis. 124:148, 1971; Chanda, P. K. et al., Virology 175:535, 1990), particles of viral or synthetic origin (e.g., Kofler, N. et al., J. Immunol. Methods. 192:25, 1996; Eldridge, J. H. et al., Sem. Hematol. 30:16, 1993; Falo, L. D., Jr. et al., Nature Med. 7:649, 1995), adjuvants (Warren, H. S., Vogel, F. R., and Chedid, L. A. Annu. Rev. Immunol. 4:369, 1986; Gupta, R. K. et al., Vaccine 11:293, 1993), liposomes (Reddy, R. et al., J. Immunol. 148:1585, 1992; Rock, K. L., Immunol. Today 17:131, 1996), or, naked or particle absorbed cDNA (Ulmer, J. B. et al., Science 259:1745, 1993; Robinson, H. L., Hunt, L. A., and Webster, R. G., Vaccine 11:957, 1993; Shiver, J. W. et al., In: Concepts in vaccine development, Kaufmann, S. H. E., ed., p. 423, 1996; Cease, K. B., and Berzofsky, J. A., Annu. Rev. Immunol. 12:923, 1994 and Eldridge, J. H. et al., Sem. Hematol. 30:16, 1993). Toxin-targeted delivery technologies, also known as receptor mediated targeting, such as those of Avant Immunotherapeutics, Inc. (Needham, Mass.) may also be used.

In patients with 184P1E2-associated cancer, the vaccine compositions of the invention can also be used in conjunction with other treatments used for cancer, e.g., surgery, chemotherapy, drug therapies, radiation therapies, etc. including use in combination with immune adjuvants such as IL-2, IL-12, GM-CSF, and the like.

Cellular Vaccines:

CTL epitopes can be determined using specific algorithms to identify peptides within 184P1E2 protein that bind corresponding HLA alleles (see e.g., Table IV; Epimer™ and Epimatrix™, Brown University, BIMAS and INTERNET site SYFPEITHI. In a preferred embodiment, a 184P1E2 immunogen contains one or more amino acid sequences identified using techniques well known in the art, such as the sequences shown in Tables V-XVIII and XXII-LI or a peptide of 8, 9, 10 or 11 amino acids specified by an HLA Class I motif/supermotif (e.g., Table IV (A), Table IV (D), or Table IV (E)) and/or a peptide of at least 9 amino acids that comprises an HLA Class II motif/supermotif (e.g., Table IV (B) or Table IV (C)). As is appreciated in the art, the HLA Class I binding groove is essentially closed ended so that peptides of only a particular size range can fit into the groove and be bound, generally HLA Class I epitopes are 8, 9, 10, or 11 amino acids long. In contrast, the HLA Class II binding groove is essentially open ended; therefore a peptide of about 9 or more amino acids can be bound by an HLA Class I molecule. Due to the binding groove differences between HLA Class I and II, HLA Class I motifs are length specific, i.e., position two of a Class I motif is the second amino acid in an amino to carboxyl direction of the peptide. The amino acid positions in a Class II motif are relative only to each other, not the overall peptide, i.e., additional amino acids can be attached to the amino and/or carboxyl termini of a motif-bearing sequence. HLA Class II epitopes are often 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, or 25 amino acids long, or longer than 25 amino acids.

Antibody-Based Vaccines

A wide variety of methods for generating an immune response in a mammal are known in the art (for example as the first step in the generation of hybridomas). Methods of generating an immune response in a mammal comprise exposing the mammal's immune system to an immunogenic epitope on a protein (e.g. a 184P1E2 protein) so that an immune response is generated. A typical embodiment consists of a method for generating an immune response to 184P1E2 in a host, by contacting the host with a sufficient amount of at least one 184P1E2 B cell or cytotoxic T-cell epitope or analog thereof; and at least one periodic interval thereafter re-contacting the host with the 184P1E2 B cell or cytotoxic T-cell epitope or analog thereof. A specific embodiment consists of a method of generating an immune response against a 184P1E2-related protein or a man-made multiepitopic peptide comprising: administering 184P1E2 immunogen (e.g. a 184P1E2 protein or a peptide fragment thereof, a 184P1E2 fusion protein or analog etc.) in a vaccine preparation to a human or another mammal. Typically, such vaccine preparations further contain a suitable adjuvant (see, e.g., U.S. Pat. No. 6,146,635) or a universal helper epitope such as a PADRE™ peptide (Epimmune Inc., San Diego, Calif.; see, e.g., Alexander et al., J. Immunol. 2000 164(3); 164(3): 1625-1633; Alexander et al., Immunity 1994 1(9): 751-761 and Alexander et al., Immunol. Res. 1998 18(2): 79-92). An alternative method comprises generating an immune response in an individual against a 184P1E2 immunogen by: administering in vivo to muscle or skin of the individual's body a DNA molecule that comprises a DNA sequence that encodes a 184P1E2 immunogen, the DNA sequence operatively linked to regulatory sequences which control the expression of the DNA sequence; wherein the DNA molecule is taken up by cells, the DNA sequence is expressed in the cells and an immune response is generated against the immunogen (see, e.g., U.S. Pat. No. 5,962,428). Optionally a genetic vaccine facilitator such as anionic lipids; saponins; lectins; estrogenic compounds; hydroxylated lower alkyls; dimethyl sulfoxide; and urea is also administered. In addition, an antiidiotypic antibody can be administered that mimics 184P1E2, in order to generate a response to the target antigen.

Nucleic Acid Vaccines:

Vaccine compositions of the invention include nucleic acid-mediated modalities. DNA or RNA that encode protein(s) of the invention can be administered to a patient. Genetic immunization methods can be employed to generate prophylactic or therapeutic humoral and cellular immune responses directed against cancer cells expressing 184P1E2. Constructs comprising DNA encoding a 184P1E2-related protein/immunogen and appropriate regulatory sequences can be injected directly into muscle or skin of an individual, such that the cells of the muscle or skin take-up the construct and express the encoded 184P1E2 protein/immunogen. Alternatively, a vaccine comprises a 184P1E2-related protein. Expression of the 184P1E2-related protein immunogen results in the generation of prophylactic or therapeutic humoral and cellular immunity against cells that bear a 184P1E2 protein. Various prophylactic and therapeutic genetic immunization techniques known in the art can be used (for review, see information and references published on the INTERNET). Nucleic acid-based delivery is described, for instance, in Wolff, et. al., Science 247:1465 (1990) as well as U.S. Pat. Nos. 5,580,859; 5,589,466; 5,804,566; 5,739,118; 5,736,524; 5,679,647; WO 98/04720. Examples of DNA-based delivery technologies include “naked DNA”, facilitated (bupivicaine, polymers, peptide-mediated) delivery, cationic lipid complexes, and particle-mediated (“gene gun”) or pressure-mediated delivery (see, e.g., U.S. Pat. No. 5,922,687).

For therapeutic or prophylactic immunization purposes, proteins of the invention can be expressed via viral or bacterial vectors. Various viral gene delivery systems that can be used in the practice of the invention include, but are not limited to, vaccinia, fowlpox, canarypox, adenovirus, influenza, poliovirus, adeno-associated virus, lentivirus, and sindbis virus (see, e.g., Restifo, 1996, Curr. Opin. Immunol. 8:658-663; Tsang et al. J. Natl Cancer Inst. 87:982-990 (1995)). Non-viral delivery systems can also be employed by introducing naked DNA encoding a 184P1E2-related protein into the patient (e.g., intramuscularly or intradermally) to induce an anti-tumor response.

Vaccinia virus is used, for example, as a vector to express nucleotide sequences that encode the peptides of the invention. Upon introduction into a host, the recombinant vaccinia virus expresses the protein immunogenic peptide, and thereby elicits a host immune response. Vaccinia vectors and methods useful in immunization protocols are described in, e.g., U.S. Pat. No. 4,722,848. Another vector is BCG (Bacille Calmette Guerin). BCG vectors are described in Stover et al., Nature 351:456-460 (1991). A wide variety of other vectors useful for therapeutic administration or immunization of the peptides of the invention, e.g. adeno and adeno-associated virus vectors, retroviral vectors, Salmonella typhi vectors, detoxified anthrax toxin vectors, and the like, will be apparent to those skilled in the art from the description herein.

Thus, gene delivery systems are used to deliver a 184P1E2-related nucleic acid molecule. In one embodiment, the full-length human 184P1E2 cDNA is employed. In another embodiment, 184P1E2 nucleic acid molecules encoding specific cytotoxic T lymphocyte (CTL) and/or antibody epitopes are employed.

Ex Vivo Vaccines

Various ex vivo strategies can also be employed to generate an immune response. One approach involves the use of antigen presenting cells (APCs) such as dendritic cells (DC) to present 184P1E2 antigen to a patient's immune system. Dendritic cells express MHC class I and II molecules, B7 co-stimulator, and IL-12, and are thus highly specialized antigen presenting cells. In prostate cancer, autologous dendritic cells pulsed with peptides of the prostate-specific membrane antigen (PSMA) are being used in a Phase I clinical trial to stimulate prostate cancer patients' immune systems (Tjoa et al., 1996, Prostate 28:65-69; Murphy et al., 1996, Prostate 29:371-380). Thus, dendritic cells can be used to present 184P1E2 peptides to T cells in the context of MHC class I or II molecules. In one embodiment, autologous dendritic cells are pulsed with 184P1E2 peptides capable of binding to MHC class I and/or class II molecules. In another embodiment, dendritic cells are pulsed with the complete 184P1E2 protein. Yet another embodiment involves engineering the overexpression of a 184P1E2 gene in dendritic cells using various implementing vectors known in the art, such as adenovirus (Arthur et al., 1997, Cancer Gene Ther. 4:17-25), retrovirus (Henderson et al., 1996, Cancer Res. 56:3763-3770), lentivirus, adeno-associated virus, DNA transfection (Ribas et al., 1997, Cancer Res. 57:2865-2869), or tumor-derived RNA transfection (Ashley et al., 1997, J. Exp. Med. 186:1177-1182). Cells that express 184P1E2 can also be engineered to express immune modulators, such as GM-CSF, and used as immunizing agents.

X.B.) 184P1E2 as a Target for Antibody-Based Therapy

184P1E2 is an attractive target for antibody-based therapeutic strategies. A number of antibody strategies are known in the art for targeting both extracellular and intracellular molecules (see, e.g., complement and ADCC mediated killing as well as the use of intrabodies). Because 184P1E2 is expressed by cancer cells of various lineages relative to corresponding normal cells, systemic administration of 184P1E2-immunoreactive compositions are prepared that exhibit excellent sensitivity without toxic, non-specific and/or non-target effects caused by binding of the immunoreactive composition to non-target organs and tissues. Antibodies specifically reactive with domains of 184P1E2 are useful to treat 184P1E2-expressing cancers systemically, either as conjugates with a toxin or therapeutic agent, or as naked antibodies capable of inhibiting cell proliferation or function.

184P1E2 antibodies can be introduced into a patient such that the antibody binds to 184P1E2 and modulates a function, such as an interaction with a binding partner, and consequently mediates destruction of the tumor cells and/or inhibits the growth of the tumor cells. Mechanisms by which such antibodies exert a therapeutic effect can include complement-mediated cytolysis, antibody-dependent cellular cytotoxicity, modulation of the physiological function of 184P1E2, inhibition of ligand binding or signal transduction pathways, modulation of tumor cell differentiation, alteration of tumor angiogenesis factor profiles, and/or apoptosis.

Those skilled in the art understand that antibodies can be used to specifically target and bind immunogenic molecules such as an immunogenic region of a 184P1E2 sequence shown in FIG. 2 or FIG. 3. In addition, skilled artisans understand that it is routine to conjugate antibodies to cytotoxic agents (see, e.g., Slevers et al. Blood 93:11 3678-3684 (Jun. 1, 1999)). When cytotoxic and/or therapeutic agents are delivered directly to cells, such as by conjugating them to antibodies specific for a molecule expressed by that cell (e.g. 184P1E2), the cytotoxic agent will exert its known biological effect (i.e. cytotoxicity) on those cells.

A wide variety of compositions and methods for using antibody-cytotoxic agent conjugates to kill cells are known in the art. In the context of cancers, typical methods entail administering to an animal having a tumor a biologically effective amount of a conjugate comprising a selected cytotoxic and/or therapeutic agent linked to a targeting agent (e.g. an anti-184P1E2 antibody) that binds to a marker (e.g. 184P1E2) expressed, accessible to binding or localized on the cell surfaces. A typical embodiment is a method of delivering a cytotoxic and/or therapeutic agent to a cell expressing 184P1E2, comprising conjugating the cytotoxic agent to an antibody that immunospecifically binds to a 184P1E2 epitope, and, exposing the cell to the antibody-agent conjugate. Another illustrative embodiment is a method of treating an individual suspected of suffering from metastasized cancer, comprising a step of administering parenterally to said individual a pharmaceutical composition comprising a therapeutically effective amount of an antibody conjugated to a cytotoxic and/or therapeutic agent.

Cancer immunotherapy using anti-184P1E2 antibodies can be done in accordance with various approaches that have been successfully employed in the treatment of other types of cancer, including but not limited to colon cancer (Arlen et al., 1998, Crit. Rev. Immunol. 18:133-138), multiple myeloma (Ozaki et al., 1997, Blood 90:3179-3186, Tsunenari et al., 1997, Blood 90:2437-2444), gastric cancer (Kasprzyk et al., 1992, Cancer Res. 52:2771-2776), B-cell lymphoma (Funakoshi et al., 1996, J. Immunother. Emphasis Tumor Immunol. 19:93-101), leukemia (Zhong et al., 1996, Leuk. Res. 20:581-589), colorectal cancer (Moun et al., 1994, Cancer Res. 54:6160-6166; Velders et al., 1995, Cancer Res. 55:4398-4403), and breast cancer (Shepard et al., 1991, J. Clin. Immunol. 11:117-127). Some therapeutic approaches involve conjugation of naked antibody to a toxin or radioisotope, such as the conjugation of Y⁹¹ or I¹³¹ to anti-CD20 antibodies (e.g., Zevalin™, IDEC Pharmaceuticals Corp. or Bexxar™, Coulter Pharmaceuticals), while others involve co-administration of antibodies and other therapeutic agents, such as Herceptin™ (trastuzumab) with paclitaxel (Genentech, Inc.). The antibodies can be conjugated to a therapeutic agent. To treat prostate cancer, for example, 184P1E2 antibodies can be administered in conjunction with radiation, chemotherapy or hormone ablation. Also, antibodies can be conjugated to a toxin such as calicheamicin (e.g., Mylotarg™, Wyeth-Ayerst, Madison, N.J., a recombinant humanized IgG₄ kappa antibody conjugated to antitumor antibiotic calicheamicin) or a maytansinoid (e.g., taxane-based Tumor-Activated Prodrug, TAP, platform, ImmunoGen, Cambridge, Mass., also see e.g., U.S. Pat. No. 5,416,064).

Although 184P1E2 antibody therapy is useful for all stages of cancer, antibody therapy can be particularly appropriate in advanced or metastatic cancers. Treatment with the antibody therapy of the invention is indicated for patients who have received one or more rounds of chemotherapy. Alternatively, antibody therapy of the invention is combined with a chemotherapeutic or radiation regimen for patients who have not received chemotherapeutic treatment. Additionally, antibody therapy can enable the use of reduced dosages of concomitant chemotherapy, particularly for patients who do not tolerate the toxicity of the chemotherapeutic agent very well. Fan et al. (Cancer Res. 53:4637-4642, 1993), Prewett et al. (International J. of Onco. 9:217-224, 1996), and Hancock et al. (Cancer Res. 51:4575-4580, 1991) describe the use of various antibodies together with chemotherapeutic agents.

Although 184P1E2 antibody therapy is useful for all stages of cancer, antibody therapy can be particularly appropriate in advanced or metastatic cancers. Treatment with the antibody therapy of the invention is indicated for patients who have received one or more rounds of chemotherapy. Alternatively, antibody therapy of the invention is combined with a chemotherapeutic or radiation regimen for patients who have not received chemotherapeutic treatment. Additionally, antibody therapy can enable the use of reduced dosages of concomitant chemotherapy, particularly for patients who do not tolerate the toxicity of the chemotherapeutic agent very well.

Cancer patients can be evaluated for the presence and level of 184P1E2 expression, preferably using immunohistochemical assessments of tumor tissue, quantitative 184P1E2 imaging, or other techniques that reliably indicate the presence and degree of 184P1E2 expression. Immunohistochemical analysis of tumor biopsies or surgical specimens is preferred for this purpose. Methods for immunohistochemical analysis of tumor tissues are well known in the art.

Anti-184P1E2 monoclonal antibodies that treat prostate and other cancers include those that initiate a potent immune response against the tumor or those that are directly cytotoxic. In this regard, anti-184P1E2 monoclonal antibodies (mAbs) can elicit tumor cell lysis by either complement-mediated or antibody-dependent cell cytotoxicity (ADCC) mechanisms, both of which require an intact Fc portion of the immunoglobulin molecule for interaction with effector cell Fc receptor sites on complement proteins. In addition, anti-184P1E2 mAbs that exert a direct biological effect on tumor growth are useful to treat cancers that express 184P1E2. Mechanisms by which directly cytotoxic mAbs act include: inhibition of cell growth, modulation of cellular differentiation, modulation of tumor angiogenesis factor profiles, and the induction of apoptosis. The mechanism(s) by which a particular anti-184P1E2 mAb exerts an anti-tumor effect is evaluated using any number of in vitro assays that evaluate cell death such as ADCC, ADMMC, complement-mediated cell lysis, and so forth, as is generally known in the art.

In some patients, the use of murine or other non-human monoclonal antibodies, or human/mouse chimeric mAbs can induce moderate to strong immune responses against the non-human antibody. This can result in clearance of the antibody from circulation and reduced efficacy. In the most severe cases, such an immune response can lead to the extensive formation of immune complexes which, potentially, can cause renal failure. Accordingly, preferred monoclonal antibodies used in the therapeutic methods of the invention are those that are either fully human or humanized and that bind specifically to the target 184P1E2 antigen with high affinity but exhibit low or no antigenicity in the patient.

Therapeutic methods of the invention contemplate the administration of single anti-184P1E2 mAbs as well as combinations, or cocktails, of different mAbs. Such mAb cocktails can have certain advantages inasmuch as they contain mAbs that target different epitopes, exploit different effector mechanisms or combine directly cytotoxic mAbs with mAbs that rely on immune effector functionality. Such mAbs in combination can exhibit synergistic therapeutic effects. In addition, anti-184P1E2 mAbs can be administered concomitantly with other therapeutic modalities, including but not limited to various chemotherapeutic agents, androgen-blockers, immune modulators (e.g., IL-2, GM-CSF), surgery or radiation. The anti-184P1E2 mAbs are administered in their “naked” or unconjugated form, or can have a therapeutic agent(s) conjugated to them.

Anti-184P1E2 antibody formulations are administered via any route capable of delivering the antibodies to a tumor cell. Routes of administration include, but are not limited to, intravenous, intraperitoneal, intramuscular, intratumor, intradermal, and the like. Treatment generally involves repeated administration of the anti-184P1E2 antibody preparation, via an acceptable route of administration such as intravenous injection (IV), typically at a dose in the range of about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9., 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, or 25 mg/kg body weight. In general, doses in the range of 10-1000 mg mAb per week are effective and well tolerated.

Based on clinical experience with the Herceptin™ mAb in the treatment of metastatic breast cancer, an initial loading dose of approximately 4 mg/kg patient body weight IV, followed by weekly doses of about 2 mg/kg IV of the anti-184P1E2 mAb preparation represents an acceptable dosing regimen. Preferably, the initial loading dose is administered as a 90 minute or longer infusion. The periodic maintenance dose is administered as a 30 minute or longer infusion, provided the initial dose was well tolerated. As appreciated by those of skill in the art, various factors can influence the ideal dose regimen in a particular case. Such factors include, for example, the binding affinity and half life of the Ab or mAbs used, the degree of 184P1E2 expression in the patient, the extent of circulating shed 184P1E2 antigen, the desired steady-state antibody concentration level, frequency of treatment, and the influence of chemotherapeutic or other agents used in combination with the treatment method of the invention, as well as the health status of a particular patient.

Optionally, patients should be evaluated for the levels of 184P1E2 in a given sample (e.g. the levels of circulating 184P1E2 antigen and/or 184P1E2 expressing cells) in order to assist in the determination of the most effective dosing regimen, etc. Such evaluations are also used for monitoring purposes throughout therapy, and are useful to gauge therapeutic success in combination with the evaluation of other parameters (for example, urine cytology and/or ImmunoCyt levels in bladder cancer therapy, or by analogy, serum PSA levels in prostate cancer therapy).

Anti-idiotypic anti-184P1E2 antibodies can also be used in anti-cancer therapy as a vaccine for inducing an immune response to cells expressing a 184P1E2-related protein. In particular, the generation of anti-idiotypic antibodies is well known in the art; this methodology can readily be adapted to generate anti-idiotypic anti-184P1E2 antibodies that mimic an epitope on a 184P1E2-related protein (see, for example, Wagner et al., 1997, Hybridoma 16: 33-40; Foon et al., 1995, J. Clin. Invest. 96:334-342; Herlyn et al., 1996, Cancer Immunol. Immunother. 43:65-76). Such an anti-idiotypic antibody can be used in cancer vaccine strategies.

X.C.) 184P1E2 as a Target for Cellular Immune Responses

Vaccines and methods of preparing vaccines that contain an immunogenically effective amount of one or more HLA-binding peptides as described herein are further embodiments of the invention. Furthermore, vaccines in accordance with the invention encompass compositions of one or more of the claimed peptides. A peptide can be present in a vaccine individually. Alternatively, the peptide can exist as a homopolymer comprising multiple copies of the same peptide, or as a heteropolymer of various peptides. Polymers have the advantage of increased immunological reaction and, where different peptide epitopes are used to make up the polymer, the additional ability to induce antibodies and/or CTLs that react with different antigenic determinants of the pathogenic organism or tumor-related peptide targeted for an immune response. The composition can be a naturally occurring region of an antigen or can be prepared, e.g., recombinantly or by chemical synthesis.

Carriers that can be used with vaccines of the invention are well known in the art, and include, e.g., thyroglobulin, albumins such as human serum albumin, tetanus toxoid, polyamino acids such as poly L-lysine, poly L-glutamic acid, influenza, hepatitis B virus core protein, and the like. The vaccines can contain a physiologically tolerable (i.e., acceptable) diluent such as water, or saline, preferably phosphate buffered saline. The vaccines also typically include an adjuvant. Adjuvants such as incomplete Freund's adjuvant, aluminum phosphate, aluminum hydroxide, or alum are examples of materials well known in the art. Additionally, as disclosed herein, CTL responses can be primed by conjugating peptides of the invention to lipids, such as tripalmitoyl-S-glycerylcysteinlyseryl-serine (P₃CSS). Moreover, an adjuvant such as a synthetic cytosine-phosphorothiolated-guanine-containing (CpG) oligonucleotides has been found to increase CTL responses 10- to 100-fold. (see, e.g. Davila and Celis, J. Immunol. 165:539-547 (2000))

Upon immunization with a peptide composition in accordance with the invention, via injection, aerosol, oral, transdermal, transmucosal, intrapleural, intrathecal, or other suitable routes, the immune system of the host responds to the vaccine by producing large amounts of CTLs and/or HTLs specific for the desired antigen. Consequently, the host becomes at least partially immune to later development of cells that express or overexpress 184P1E2 antigen, or derives at least some therapeutic benefit when the antigen was tumor-associated.

In some embodiments, it may be desirable to combine the class I peptide components with components that induce or facilitate neutralizing antibody and or helper T cell responses directed to the target antigen. A preferred embodiment of such a composition comprises class I and class II epitopes in accordance with the invention. An alternative embodiment of such a composition comprises a class I and/or class II epitope in accordance with the invention, along with a cross reactive HTL epitope such as PADRE™ (Epimmune, San Diego, Calif.) molecule (described e.g., in U.S. Pat. No. 5,736,142).

A vaccine of the invention can also include antigen-presenting cells (APC), such as dendritic cells (DC), as a vehicle to present peptides of the invention. Vaccine compositions can be created in vitro, following dendritic cell mobilization and harvesting, whereby loading of dendritic cells occurs in vitro. For example, dendritic cells are transfected, e.g., with a minigene in accordance with the invention, or are pulsed with peptides. The dendritic cell can then be administered to a patient to elicit immune responses in vivo. Vaccine compositions, either DNA- or peptide-based, can also be administered in vivo in combination with dendritic cell mobilization whereby loading of dendritic cells occurs in vivo.

Preferably, the following principles are utilized when selecting an array of epitopes for inclusion in a polyepitopic composition for use in a vaccine, or for selecting discrete epitopes to be included in a vaccine and/or to be encoded by nucleic acids such as a minigene. It is preferred that each of the following principles be balanced in order to make the selection. The multiple epitopes to be incorporated in a given vaccine composition may be, but need not be, contiguous in sequence in the native antigen from which the epitopes are derived.

1.) Epitopes are selected which, upon administration, mimic immune responses that have been observed to be correlated with tumor clearance. For HLA Class I this includes 3-4 epitopes that come from at least one tumor associated antigen (TAA). For HLA Class II a similar rationale is employed; again 3-4 epitopes are selected from at least one TAA (see, e.g., Rosenberg et al., Science 278:1447-1450). Epitopes from one TAA may be used in combination with epitopes from one or more additional TAAs to produce a vaccine that targets tumors with varying expression patterns of frequently-expressed TAAs.

2.) Epitopes are selected that have the requisite binding affinity established to be correlated with immunogenicity: for HLA Class I an IC₅₀ of 500 nM or less, often 200 nM or less; and for Class II an IC₅₀ of 1000 nM or less.

3.) Sufficient supermotif bearing-peptides, or a sufficient array of allele-specific motif-bearing peptides, are selected to give broad population coverage. For example, it is preferable to have at least 80% population coverage. A Monte Carlo analysis, a statistical evaluation known in the art, can be employed to assess the breadth, or redundancy of, population coverage.

4.) When selecting epitopes from cancer-related antigens it is often useful to select analogs because the patient may have developed tolerance to the native epitope.

5.) Of particular relevance are epitopes referred to as “nested epitopes.” Nested epitopes occur where at least two epitopes overlap in a given peptide sequence. A nested peptide sequence can comprise B cell, HLA class I and/or HLA class II epitopes. When providing nested epitopes, a general objective is to provide the greatest number of epitopes per sequence. Thus, an aspect is to avoid providing a peptide that is any longer than the amino terminus of the amino terminal epitope and the carboxyl terminus of the carboxyl terminal epitope in the peptide. When providing a multi-epitopic sequence, such as a sequence comprising nested epitopes, it is generally important to screen the sequence in order to insure that it does not have pathological or other deleterious biological properties.

6.) If a polyepitopic protein is created, or when creating a minigene, an objective is to generate the smallest peptide that encompasses the epitopes of interest. This principle is similar, if not the same as that employed when selecting a peptide comprising nested epitopes. However, with an artificial polyepitopic peptide, the size minimization objective is balanced against the need to integrate any spacer sequences between epitopes in the polyepitopic protein. Spacer amino acid residues can, for example, be introduced to avoid junctional epitopes (an epitope recognized by the immune system, not present in the target antigen, and only created by the man-made juxtaposition of epitopes), or to facilitate cleavage between epitopes and thereby enhance epitope presentation. Junctional epitopes are generally to be avoided because the recipient may generate an immune response to that non-native epitope. Of particular concern is a junctional epitope that is a “dominant epitope.” A dominant epitope may lead to such a zealous response that immune responses to other epitopes are diminished or suppressed.

7.) Where the sequences of multiple variants of the same target protein are present, potential peptide epitopes can also be selected on the basis of their conservancy. For example, a criterion for conservancy may define that the entire sequence of an HLA class I binding peptide or the entire 9-mer core of a class II binding peptide be conserved in a designated percentage of the sequences evaluated for a specific protein antigen.

X.C.1. Minigene Vaccines

A number of different approaches are available which allow simultaneous delivery of multiple epitopes. Nucleic acids encoding the peptides of the invention are a particularly useful embodiment of the invention. Epitopes for inclusion in a minigene are preferably selected according to the guidelines set forth in the previous section. A preferred means of administering nucleic acids encoding the peptides of the invention uses minigene constructs encoding a peptide comprising one or multiple epitopes of the invention.

The use of multi-epitope minigenes is described below and in, Ishioka et al., J. Immunol. 162:3915-3925, 1999; An, L. and Whitton, J. L., J. Virol. 71:2292, 1997; Thomson, S. A. et al., J. Immunol. 157:822, 1996; Whitton, J. L. et al., J. Virol. 67:348, 1993; Hanke, R. et al., Vaccine 16:426, 1998. For example, a multi-epitope DNA plasmid encoding supermotif- and/or motif-bearing epitopes derived 184P1E2, the PADRE® universal helper T cell epitope or multiple HTL epitopes from 184P1E2 (see e.g., Tables V-XVIII and XXII to LI), and an endoplasmic reticulum-translocating signal sequence can be engineered. A vaccine may also comprise epitopes that are derived from other TAAs.

The immunogenicity of a multi-epitopic minigene can be confirmed in transgenic mice to evaluate the magnitude of CTL induction responses against the epitopes tested. Further, the immunogenicity of DNA-encoded epitopes in vivo can be correlated with the in vitro responses of specific CTL lines against target cells transfected with the DNA plasmid. Thus, these experiments can show that the minigene serves to both: 1.) generate a CTL response and 2.) that the induced CTLs recognized cells expressing the encoded epitopes.

For example, to create a DNA sequence encoding the selected epitopes (minigene) for expression in human cells, the amino acid sequences of the epitopes may be reverse translated. A human codon usage table can be used to guide the codon choice for each amino acid. These epitope-encoding DNA sequences may be directly adjoined, so that when translated, a continuous polypeptide sequence is created. To optimize expression and/or immunogenicity, additional elements can be incorporated into the minigene design. Examples of amino acid sequences that can be reverse translated and included in the minigene sequence include: HLA class I epitopes, HLA class II epitopes, antibody epitopes, a ubiquitination signal sequence, and/or an endoplasmic reticulum targeting signal. In addition, HLA presentation of CTL and HTL epitopes may be improved by including synthetic (e.g. poly-alanine) or naturally-occurring flanking sequences adjacent to the CTL or HTL epitopes; these larger peptides comprising the epitope(s) are within the scope of the invention.

The minigene sequence may be converted to DNA by assembling oligonucleotides that encode the plus and minus strands of the minigene. Overlapping oligonucleotides (30-100 bases long) may be synthesized, phosphorylated, purified and annealed under appropriate conditions using well known techniques. The ends of the oligonucleotides can be joined, for example, using T4 DNA ligase. This synthetic minigene, encoding the epitope polypeptide, can then be cloned into a desired expression vector.

Standard regulatory sequences well known to those of skill in the art are preferably included in the vector to ensure expression in the target cells. Several vector elements are desirable: a promoter with a down-stream cloning site for minigene insertion; a polyadenylation signal for efficient transcription termination; an E. coli origin of replication; and an E. coli selectable marker (e.g. ampicillin or kanamycin resistance). Numerous promoters can be used for this purpose, e.g., the human cytomegalovirus (hCMV) promoter. See, e.g., U.S. Pat. Nos. 5,580,859 and 5,589,466 for other suitable promoter sequences.

Additional vector modifications may be desired to optimize minigene expression and immunogenicity. In some cases, introns are required for efficient gene expression, and one or more synthetic or naturally-occurring introns could be incorporated into the transcribed region of the minigene. The inclusion of mRNA stabilization sequences and sequences for replication in mammalian cells may also be considered for increasing minigene expression.

Once an expression vector is selected, the minigene is cloned into the polylinker region downstream of the promoter. This plasmid is transformed into an appropriate E. coli strain, and DNA is prepared using standard techniques. The orientation and DNA sequence of the minigene, as well as all other elements included in the vector, are confirmed using restriction mapping and DNA sequence analysis. Bacterial cells harboring the correct plasmid can be stored as a master cell bank and a working cell bank.

In addition, immunostimulatory sequences (ISSs or CpGs) appear to play a role in the immunogenicity of DNA vaccines. These sequences may be included in the vector, outside the minigene coding sequence, if desired to enhance immunogenicity.

In some embodiments, a bi-cistronic expression vector which allows production of both the minigene-encoded epitopes and a second protein (included to enhance or decrease immunogenicity) can be used. Examples of proteins or polypeptides that could beneficially enhance the immune response if co-expressed include cytokines (e.g., IL-2, IL-12, GM-CSF), cytokine-inducing molecules (e.g., LeIF), costimulatory molecules, or for HTL responses, pan-DR binding proteins (PADRE™, Epimmune, San Diego, Calif.). Helper (HTL) epitopes can be joined to intracellular targeting signals and expressed separately from expressed CTL epitopes; this allows direction of the HTL epitopes to a cell compartment different than that of the CTL epitopes. If required, this could facilitate more efficient entry of HTL epitopes into the HLA class II pathway, thereby improving HTL induction. In contrast to HTL or CTL induction, specifically decreasing the immune response by co-expression of immunosuppressive molecules (e.g. TGF-β) may be beneficial in certain diseases.

Therapeutic quantities of plasmid DNA can be produced for example, by fermentation in E. coli, followed by purification. Aliquots from the working cell bank are used to inoculate growth medium, and grown to saturation in shaker flasks or a bioreactor according to well-known techniques. Plasmid DNA can be purified using standard bioseparation technologies such as solid phase anion-exchange resins supplied by QIAGEN, Inc. (Valencia, Calif.). If required, supercoiled DNA can be isolated from the open circular and linear forms using gel electrophoresis or other methods.

Purified plasmid DNA can be prepared for injection using a variety of formulations. The simplest of these is reconstitution of lyophilized DNA in sterile phosphate-buffer saline (PBS). This approach, known as “naked DNA,” is currently being used for intramuscular (IM) administration in clinical trials. To maximize the immunotherapeutic effects of minigene DNA vaccines, an alternative method for formulating purified plasmid DNA may be desirable. A variety of methods have been described, and new techniques may become available. Cationic lipids, glycolipids, and fusogenic liposomes can also be used in the formulation (see, e.g., as described by WO 93/24640; Mannino & Gould-Fogerite, BioTechniques 6(7): 682 (1988); U.S. Pat. No. 5,279,833; WO 91/06309; and Feigner, et al., Proc. Nat'l Acad. Sci. USA 84:7413 (1987). In addition, peptides and compounds referred to collectively as protective, interactive, non-condensing compounds (PINC) could also be complexed to purified plasmid DNA to influence variables such as stability, intramuscular dispersion, or trafficking to specific organs or cell types.

Target cell sensitization can be used as a functional assay for expression and HLA class I presentation of minigene-encoded CTL epitopes. For example, the plasmid DNA is introduced into a mammalian cell line that is suitable as a target for standard CTL chromium release assays. The transfection method used will be dependent on the final formulation. Electroporation can be used for “naked” DNA, whereas cationic lipids allow direct in vitro transfection. A plasmid expressing green fluorescent protein (GFP) can be co-transfected to allow enrichment of transfected cells using fluorescence activated cell sorting (FACS). These cells are then chromium-51 (⁵¹Cr) labeled and used as target cells for epitope-specific CTL lines; cytolysis, detected by ⁵¹Cr release, indicates both production of, and HLA presentation of, minigene-encoded CTL epitopes. Expression of HTL epitopes may be evaluated in an analogous manner using assays to assess HTL activity.

In vivo immunogenicity is a second approach for functional testing of minigene DNA formulations. Transgenic mice expressing appropriate human HLA proteins are immunized with the DNA product. The dose and route of administration are formulation dependent (e.g., IM for DNA in PBS, intraperitoneal (i.p.) for lipid-complexed DNA). Twenty-one days after immunization, splenocytes are harvested and restimulated for one week in the presence of peptides encoding each epitope being tested. Thereafter, for CTL effector cells, assays are conducted for cytolysis of peptide-loaded, ⁵¹Cr-labeled target cells using standard techniques. Lysis of target cells that were sensitized by HLA loaded with peptide epitopes, corresponding to minigene-encoded epitopes, demonstrates DNA vaccine function for in vivo induction of CTLs. Immunogenicity of HTL epitopes is confirmed in transgenic mice in an analogous manner.

Alternatively, the nucleic acids can be administered using ballistic delivery as described, for instance, in U.S. Pat. No. 5,204,253. Using this technique, particles comprised solely of DNA are administered. In a further alternative embodiment, DNA can be adhered to particles, such as gold particles.

Minigenes can also be delivered using other bacterial or viral delivery systems well known in the art, e.g., an expression construct encoding epitopes of the invention can be incorporated into a viral vector such as vaccinia.

X.C.2. Combinations of CTL Peptides with Helper Peptides

Vaccine compositions comprising CTL peptides of the invention can be modified, e.g., analoged, to provide desired attributes, such as improved serum half life, broadened population coverage or enhanced immunogenicity.

For instance, the ability of a peptide to induce CTL activity can be enhanced by linking the peptide to a sequence which contains at least one epitope that is capable of inducing a T helper cell response. Although a CTL peptide can be directly linked to a T helper peptide, often CTL epitope/HTL epitope conjugates are linked by a spacer molecule. The spacer is typically comprised of relatively small, neutral molecules, such as amino acids or amino acid mimetics, which are substantially uncharged under physiological conditions. The spacers are typically selected from, e.g., Ala, Gly, or other neutral spacers of nonpolar amino acids or neutral polar amino acids. It will be understood that the optionally present spacer need not be comprised of the same residues and thus may be a hetero- or homo-oligomer. When present, the spacer will usually be at least one or two residues, more usually three to six residues and sometimes 10 or more residues. The CTL peptide epitope can be linked to the T helper peptide epitope either directly or via a spacer either at the amino or carboxy terminus of the CTL peptide. The amino terminus of either the immunogenic peptide or the T helper peptide may be acylated.

In certain embodiments, the T helper peptide is one that is recognized by T helper cells present in a majority of a genetically diverse population. This can be accomplished by selecting peptides that bind to many, most, or all of the HLA class II molecules. Examples of such amino acid bind many HLA Class II molecules include sequences from antigens such as tetanus toxoid at positions 830-843 (QYIKANSKFIGITE; SEQ ID NO: 29), Plasmodium falciparum circumsporozoite (CS) protein at positions 378-398 (DIEKKIAKMEKASSVFNVVNS; SEQ ID NO: 30), and Streptococcus 18 kD protein at positions 116-131 (GAVDSILGGVATYGAA; SEQ ID NO: 31). Other examples include peptides bearing a DR 1-4-7 supermotif, or either of the DR3 motifs.

Alternatively, it is possible to prepare synthetic peptides capable of stimulating T helper lymphocytes, in a loosely HLA-restricted fashion, using amino acid sequences not found in nature (see, e.g., PCT publication WO 95/07707). These synthetic compounds called Pan-DR-binding epitopes (e.g., PADRE™, Epimmune, Inc., San Diego, Calif.) are designed to most preferably bind most HLA-DR (human HLA class II) molecules. For instance, a pan-DR-binding epitope peptide having the formula: aKXVAAWTLKAAa (SEQ ID NO: 32), where “X” is either cyclohexylalanine, phenylalanine, or tyrosine, and a is either D-alanine or L-alanine, has been found to bind to most HLA-DR alleles, and to stimulate the response of T helper lymphocytes from most individuals, regardless of their HLA type. An alternative of a pan-DR binding epitope comprises all “L” natural amino acids and can be provided in the form of nucleic acids that encode the epitope.

HTL peptide epitopes can also be modified to alter their biological properties. For example, they can be modified to include D-amino acids to increase their resistance to proteases and thus extend their serum half life, or they can be conjugated to other molecules such as lipids, proteins, carbohydrates, and the like to increase their biological activity. For example, a T helper peptide can be conjugated to one or more palmitic acid chains at either the amino or carboxyl termini.

X.C.3. Combinations of CTL Peptides with T Cell Priming Agents

In some embodiments it may be desirable to include in the pharmaceutical compositions of the invention at least one component which primes B lymphocytes or T lymphocytes. Lipids have been identified as agents capable of priming CTL in vivo. For example, palmitic acid residues can be attached to the ε- and α-amino groups of a lysine residue and then linked, e.g., via one or more linking residues such as Gly, Gly-Gly-, Ser, Ser-Ser, or the like, to an immunogenic peptide. The lipidated peptide can then be administered either directly in a micelle or particle, incorporated into a liposome, or emulsified in an adjuvant, e.g., incomplete Freund's adjuvant. In a preferred embodiment, a particularly effective immunogenic composition comprises palmitic acid attached to ε- and α-amino groups of Lys, which is attached via linkage, e.g., Ser-Ser, to the amino terminus of the immunogenic peptide.

As another example of lipid priming of CTL responses, E. coli lipoproteins, such as tripalmitoyl-S-glycerylcysteinlyseryl-serine (P₃CSS) can be used to prime virus specific CTL when covalently attached to an appropriate peptide (see, e.g., Deres, et al., Nature 342:561, 1989). Peptides of the invention can be coupled to P₃CSS, for example, and the lipopeptide administered to an individual to specifically prime an immune response to the target antigen. Moreover, because the induction of neutralizing antibodies can also be primed with P₃CSS-conjugated epitopes, two such compositions can be combined to more effectively elicit both humoral and cell-mediated responses.

X.C.4. Vaccine Compositions Comprising DC Pulsed with CTL and/or HTL Peptides

An embodiment of a vaccine composition in accordance with the invention comprises ex vivo administration of a cocktail of epitope-bearing peptides to PBMC, or isolated DC therefrom, from the patient's blood. A pharmaceutical to facilitate harvesting of DC can be used, such as Progenipoietin™ (Pharmacia-Monsanto, St. Louis, Mo.) or GM-CSF/IL-4. After pulsing the DC with peptides and prior to reinfusion into patients, the DC are washed to remove unbound peptides. In this embodiment, a vaccine comprises peptide-pulsed DCs which present the pulsed peptide epitopes complexed with HLA molecules on their surfaces.

The DC can be pulsed ex vivo with a cocktail of peptides, some of which stimulate CTL responses to 184P1E2. Optionally, a helper T cell (HTL) peptide, such as a natural or artificial loosely restricted HLA Class II peptide, can be included to facilitate the CTL response. Thus, a vaccine in accordance with the invention is used to treat a cancer which expresses or overexpresses 184P1E2.

X.D. Adoptive Immunotherapy

Antigenic 184P1E2-related peptides are used to elicit a CTL and/or HTL response ex vivo, as well. The resulting CTL or HTL cells, can be used to treat tumors in patients that do not respond to other conventional forms of therapy, or will not respond to a therapeutic vaccine peptide or nucleic acid in accordance with the invention. Ex vivo CTL or HTL responses to a particular antigen are induced by incubating in tissue culture the patient's, or genetically compatible, CTL or HTL precursor cells together with a source of antigen-presenting cells (APC), such as dendritic cells, and the appropriate immunogenic peptide. After an appropriate incubation time (typically about 7-28 days), in which the precursor cells are activated and expanded into effector cells, the cells are infused back into the patient, where they will destroy (CTL) or facilitate destruction (HTL) of their specific target cell (e.g., a tumor cell). Transfected dendritic cells may also be used as antigen presenting cells.

X.E. Administration of Vaccines for Therapeutic or Prophylactic Purposes

Pharmaceutical and vaccine compositions of the invention are typically used to treat and/or prevent a cancer that expresses or overexpresses 184P1E2. In therapeutic applications, peptide and/or nucleic acid compositions are administered to a patient in an amount sufficient to elicit an effective B cell, CTL and/or HTL response to the antigen and to cure or at least partially arrest or slow symptoms and/or complications. An amount adequate to accomplish this is defined as “therapeutically effective dose.” Amounts effective for this use will depend on, e.g., the particular composition administered, the manner of administration, the stage and severity of the disease being treated, the weight and general state of health of the patient, and the judgment of the prescribing physician.

For pharmaceutical compositions, the immunogenic peptides of the invention, or DNA encoding them, are generally administered to an individual already bearing a tumor that expresses 184P1E2. The peptides or DNA encoding them can be administered individually or as fusions of one or more peptide sequences. Patients can be treated with the immunogenic peptides separately or in conjunction with other treatments, such as surgery, as appropriate.

For therapeutic use, administration should generally begin at the first diagnosis of 184P1E2-associated cancer. This is followed by boosting doses until at least symptoms are substantially abated and for a period thereafter. The embodiment of the vaccine composition (i.e., including, but not limited to embodiments such as peptide cocktails, polyepitopic polypeptides, minigenes, or TAA-specific CTLs or pulsed dendritic cells) delivered to the patient may vary according to the stage of the disease or the patient's health status. For example, in a patient with a tumor that expresses 184P1E2, a vaccine comprising 184P1E2-specific CTL may be more efficacious in killing tumor cells in patient with advanced disease than alternative embodiments.

It is generally important to provide an amount of the peptide epitope delivered by a mode of administration sufficient to effectively stimulate a cytotoxic T cell response; compositions which stimulate helper T cell responses can also be given in accordance with this embodiment of the invention.

The dosage for an initial therapeutic immunization generally occurs in a unit dosage range where the lower value is about 1, 5, 50, 500, or 1,000 μg and the higher value is about 10,000; 20,000; 30,000; or 50,000 μg. Dosage values for a human typically range from about 500 μg to about 50,000 μg per 70 kilogram patient. Boosting dosages of between about 1.0 μg to about 50,000 μg of peptide pursuant to a boosting regimen over weeks to months may be administered depending upon the patient's response and condition as determined by measuring the specific activity of CTL and HTL obtained from the patient's blood. Administration should continue until at least clinical symptoms or laboratory tests indicate that the neoplasia, has been eliminated or reduced and for a period thereafter. The dosages, routes of administration, and dose schedules are adjusted in accordance with methodologies known in the art.

In certain embodiments, the peptides and compositions of the present invention are employed in serious disease states, that is, life-threatening or potentially life threatening situations. In such cases, as a result of the minimal amounts of extraneous substances and the relative nontoxic nature of the peptides in preferred compositions of the invention, it is possible and may be felt desirable by the treating physician to administer substantial excesses of these peptide compositions relative to these stated dosage amounts.

The vaccine compositions of the invention can also be used purely as prophylactic agents. Generally the dosage for an initial prophylactic immunization generally occurs in a unit dosage range where the lower value is about 1, 5, 50, 500, or 1000 μg and the higher value is about 10,000; 20,000; 30,000; or 50,000 μg. Dosage values for a human typically range from about 500 μg to about 50,000 μg per 70 kilogram patient. This is followed by boosting dosages of between about 1.0 μg to about 50,000 μg of peptide administered at defined intervals from about four weeks to six months after the initial administration of vaccine. The immunogenicity of the vaccine can be assessed by measuring the specific activity of CTL and HTL obtained from a sample of the patient's blood.

The pharmaceutical compositions for therapeutic treatment are intended for parenteral, topical, oral, nasal, intrathecal, or local (e.g. as a cream or topical ointment) administration. Preferably, the pharmaceutical compositions are administered parentally, e.g., intravenously, subcutaneously, intradermally, or intramuscularly. Thus, the invention provides compositions for parenteral administration which comprise a solution of the immunogenic peptides dissolved or suspended in an acceptable carrier, preferably an aqueous carrier.

A variety of aqueous carriers may be used, e.g., water, buffered water, 0.8% saline, 0.3% glycine, hyaluronic acid and the like. These compositions may be sterilized by conventional, well-known sterilization techniques, or may be sterile filtered. The resulting aqueous solutions may be packaged for use as is, or lyophilized, the lyophilized preparation being combined with a sterile solution prior to administration.

The compositions may contain pharmaceutically acceptable auxiliary substances as required to approximate physiological conditions, such as pH-adjusting and buffering agents, tonicity adjusting agents, wetting agents, preservatives, and the like, for example, sodium acetate, sodium lactate, sodium chloride, potassium chloride, calcium chloride, sorbitan monolaurate, triethanolamine oleate, etc.

The concentration of peptides of the invention in the pharmaceutical formulations can vary widely, i.e., from less than about 0.1%, usually at or at least about 2% to as much as 20% to 50% or more by weight, and will be selected primarily by fluid volumes, viscosities, etc., in accordance with the particular mode of administration selected.

A human unit dose form of a composition is typically included in a pharmaceutical composition that comprises a human unit dose of an acceptable carrier, in one embodiment an aqueous carrier, and is administered in a volume/quantity that is known by those of skill in the art to be used for administration of such compositions to humans (see, e.g., Remington's Pharmaceutical Sciences, 17^(th) Edition, A. Gennaro, Editor, Mack Publishing Co., Easton, Pa., 1985). For example a peptide dose for initial immunization can be from about 1 to about 50,000 μg, generally 100-5,000 μg, for a 70 kg patient. For example, for nucleic acids an initial immunization may be performed using an expression vector in the form of naked nucleic acid administered IM (or SC or ID) in the amounts of 0.5-5 mg at multiple sites. The nucleic acid (0.1 to 1000 μg) can also be administered using a gene gun. Following an incubation period of 3-4 weeks, a booster dose is then administered. The booster can be recombinant fowlpox virus administered at a dose of 5-10⁷ to 5×10⁹ pfu.

For antibodies, a treatment generally involves repeated administration of the anti-184P1E2 antibody preparation, via an acceptable route of administration such as intravenous injection (IV), typically at a dose in the range of about 0.1 to about 10 mg/kg body weight. In general, doses in the range of 10-500 mg mAb per week are effective and well tolerated. Moreover, an initial loading dose of approximately 4 mg/kg patient body weight IV, followed by weekly doses of about 2 mg/kg IV of the anti-184P1E2 mAb preparation represents an acceptable dosing regimen. As appreciated by those of skill in the art, various factors can influence the ideal dose in a particular case. Such factors include, for example, half life of a composition, the binding affinity of an Ab, the immunogenicity of a substance, the degree of 184P1E2 expression in the patient, the extent of circulating shed 184P1E2 antigen, the desired steady-state concentration level, frequency of treatment, and the influence of chemotherapeutic or other agents used in combination with the treatment method of the invention, as well as the health status of a particular patient. Non-limiting preferred human unit doses are, for example, 500 μg -1 mg, 1 mg -50 mg, 50 mg -100 mg, 100 mg -200 mg, 200 mg -300 mg, 400 mg -500 mg, 500 mg -600 mg, 600 mg -700 mg, 700 mg-800 mg, 800 mg -900 mg, 900 mg-1 g, or 1 mg -700 mg. In certain embodiments, the dose is in a range of 2-5 mg/kg body weight, e.g., with follow on weekly doses of 1-3 mg/kg; 0.5 mg, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 mg/kg body weight followed, e.g., in two, three or four weeks by weekly doses; 0.5-10 mg/kg body weight, e.g., followed in two, three or four weeks by weekly doses; 225, 250, 275, 300, 325, 350, 375, 400 mg m² of body area weekly; 1-600 mg m² of body area weekly; 225-400 mg m² of body area weekly; these does can be followed by weekly doses for 2, 3, 4, 5, 6, 7, 8, 9, 19, 11, 12 or more weeks.

In one embodiment, human unit dose forms of polynucleotides comprise a suitable dosage range or effective amount that provides any therapeutic effect. As appreciated by one of ordinary skill in the art a therapeutic effect depends on a number of factors, including the sequence of the polynucleotide, molecular weight of the polynucleotide and route of administration. Dosages are generally selected by the physician or other health care professional in accordance with a variety of parameters known in the art, such as severity of symptoms, history of the patient and the like. Generally, for a polynucleotide of about 20 bases, a dosage range may be selected from, for example, an independently selected lower limit such as about 0.1, 0.25, 0.5, 1, 2, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 200, 300, 400 or 500 mg/kg up to an independently selected upper limit, greater than the lower limit, of about 60, 80, 100, 200, 300, 400, 500, 750, 1000, 1500, 2000, 3000, 4000, 5000, 6000, 7000, 8000, 9000 or 10,000 mg/kg. For example, a dose may be about any of the following: 0.1 to 100 mg/kg, 0.1 to 50 mg/kg, 0.1 to 25 mg/kg, 0.1 to 10 mg/kg, 1 to 500 mg/kg, 100 to 400 mg/kg, 200 to 300 mg/kg, 1 to 100 mg/kg, 100 to 200 mg/kg, 300 to 400 mg/kg, 400 to 500 mg/kg, 500 to 1000 mg/kg, 500 to 5000 mg/kg, or 500 to 10,000 mg/kg. Generally, parenteral routes of administration may require higher doses of polynucleotide compared to more direct application to the nucleotide to diseased tissue, as do polynucleotides of increasing length.

In one embodiment, human unit dose forms of T-cells comprise a suitable dosage range or effective amount that provides any therapeutic effect. As appreciated by one of ordinary skill in the art, a therapeutic effect depends on a number of factors. Dosages are generally selected by the physician or other health care professional in accordance with a variety of parameters known in the art, such as severity of symptoms, history of the patient and the like. A dose may be about 10⁴ cells to about 10⁶ cells, about 10⁶ cells to about 10⁸ cells, about 10⁸ to about 10¹¹ cells, or about 10⁸ to about 5×10¹⁰ cells. A dose may also about 10⁶ cells/m² to about 10¹⁰ cells/m², or about 10⁶ cells/m² to about 10⁸ cells/m².

Proteins(s) of the invention, and/or nucleic acids encoding the protein(s), can also be administered via liposomes, which may also serve to: 1) target the proteins(s) to a particular tissue, such as lymphoid tissue; 2) to target selectively to diseases cells; or, 3) to increase the half-life of the peptide composition. Liposomes include emulsions, foams, micelles, insoluble monolayers, liquid crystals, phospholipid dispersions, lamellar layers and the like. In these preparations, the peptide to be delivered is incorporated as part of a liposome, alone or in conjunction with a molecule which binds to a receptor prevalent among lymphoid cells, such as monoclonal antibodies which bind to the CD45 antigen, or with other therapeutic or immunogenic compositions. Thus, liposomes either filled or decorated with a desired peptide of the invention can be directed to the site of lymphoid cells, where the liposomes then deliver the peptide compositions. Liposomes for use in accordance with the invention are formed from standard vesicle-forming lipids, which generally include neutral and negatively charged phospholipids and a sterol, such as cholesterol. The selection of lipids is generally guided by consideration of, e.g., liposome size, acid lability and stability of the liposomes in the blood stream. A variety of methods are available for preparing liposomes, as described in, e.g., Szoka, et al., Ann. Rev. Biophys. Bioeng. 9:467 (1980), and U.S. Pat. Nos. 4,235,871, 4,501,728, 4,837,028, and 5,019,369.

For targeting cells of the immune system, a ligand to be incorporated into the liposome can include, e.g., antibodies or fragments thereof specific for cell surface determinants of the desired immune system cells. A liposome suspension containing a peptide may be administered intravenously, locally, topically, etc. in a dose which varies according to, inter alia, the manner of administration, the peptide being delivered, and the stage of the disease being treated.

For solid compositions, conventional nontoxic solid carriers may be used which include, for example, pharmaceutical grades of mannitol, lactose, starch, magnesium stearate, sodium saccharin, talcum, cellulose, glucose, sucrose, magnesium carbonate, and the like. For oral administration, a pharmaceutically acceptable nontoxic composition is formed by incorporating any of the normally employed excipients, such as those carriers previously listed, and generally 10-95% of active ingredient, that is, one or more peptides of the invention, and more preferably at a concentration of 25%-75%.

For aerosol administration, immunogenic peptides are preferably supplied in finely divided form along with a surfactant and propellant. Typical percentages of peptides are about 0.01%-20% by weight, preferably about 1%-10%. The surfactant must, of course, be nontoxic, and preferably soluble in the propellant. Representative of such agents are the esters or partial esters of fatty acids containing from about 6 to 22 carbon atoms, such as caproic, octanoic, lauric, palmitic, stearic, linoleic, linolenic, olesteric and oleic acids with an aliphatic polyhydric alcohol or its cyclic anhydride. Mixed esters, such as mixed or natural glycerides may be employed. The surfactant may constitute about 0.1%-20% by weight of the composition, preferably about 0.25-5%. The balance of the composition is ordinarily propellant. A carrier can also be included, as desired, as with, e.g., lecithin for intranasal delivery.

XI.) Diagnostic and Prognostic Embodiments of 184P1E2

As disclosed herein, 184P1E2 polynucleotides, polypeptides, reactive cytotoxic T cells (CTL), reactive helper T cells (HTL) and anti-polypeptide antibodies are used in well known diagnostic, prognostic and therapeutic assays that examine conditions associated with dysregulated cell growth such as cancer, in particular the cancers listed in Table I (see, e.g., both its specific pattern of tissue expression as well as its overexpression in certain cancers as described for example in the Example entitled “Expression analysis of 184P1E2 in normal tissues, and patient specimens”).

184P1E2 can be analogized to a prostate associated antigen PSA, the archetypal marker that has been used by medical practitioners for years to identify and monitor the presence of prostate cancer (see, e.g., Merrill et al., J. Urol. 163(2): 503-5120 (2000); Polascik et al., J. Urol. Aug; 162(2):293-306 (1999) and Fortier et al., J. Nat. Cancer Inst. 91(19): 1635-1640 (1999)). A variety of other diagnostic markers are also used in similar contexts including p53 and K-ras (see, e.g., Tulchinsky et al., Int J Mol Med 1999 July 4(1):99-102 and Minimoto et al., Cancer Detect Prev 2000; 24(1):1-12). Therefore, this disclosure of 184P1E2 polynucleotides and polypeptides (as well as 184P1E2 polynucleotide probes and anti-184P1E2 antibodies used to identify the presence of these molecules) and their properties allows skilled artisans to utilize these molecules in methods that are analogous to those used, for example, in a variety of diagnostic assays directed to examining conditions associated with cancer.

Typical embodiments of diagnostic methods which utilize the 184P1E2 polynucleotides, polypeptides, reactive T cells and antibodies are analogous to those methods from well-established diagnostic assays which employ, e.g., PSA polynucleotides, polypeptides, reactive T cells and antibodies. For example, just as PSA polynucleotides are used as probes (for example in Northern analysis, see, e.g., Sharief et al., Biochem. Mol. Biol. Int. 33(3):567-74 (1994)) and primers (for example in PCR analysis, see, e.g., Okegawa et al., J. Urol. 163(4): 1189-1190 (2000)) to observe the presence and/or the level of PSA mRNAs in methods of monitoring PSA overexpression or the metastasis of prostate cancers, the 184P1E2 polynucleotides described herein can be utilized in the same way to detect 184P1E2 overexpression or the metastasis of prostate and other cancers expressing this gene. Alternatively, just as PSA polypeptides are used to generate antibodies specific for PSA which can then be used to observe the presence and/or the level of PSA proteins in methods to monitor PSA protein overexpression (see, e.g., Stephan et al., Urology 55(4):560-3 (2000)) or the metastasis of prostate cells (see, e.g., Alanen et al., Pathol. Res. Pract. 192(3):233-7 (1996)), the 184P1E2 polypeptides described herein can be utilized to generate antibodies for use in detecting 184P1E2 overexpression or the metastasis of prostate cells and cells of other cancers expressing this gene.

Specifically, because metastases involves the movement of cancer cells from an organ of origin (such as the lung or prostate gland etc.) to a different area of the body (such as a lymph node), assays which examine a biological sample for the presence of cells expressing 184P1E2 polynucleotides and/or polypeptides can be used to provide evidence of metastasis. For example, when a biological sample from tissue that does not normally contain 184P1E2-expressing cells (lymph node) is found to contain 184P1E2-expressing cells such as the 184P1E2 expression seen in LAPC4 and LAPC9, xenografts isolated from lymph node and bone metastasis, respectively, this finding is indicative of metastasis.

Alternatively 184P1E2 polynucleotides and/or polypeptides can be used to provide evidence of cancer, for example, when cells in a biological sample that do not normally express 184P1E2 or express 184P1E2 at a different level are found to express 184P1E2 or have an increased expression of 184P1E2 (see, e.g., the 184P1E2 expression in the cancers listed in Table I and in patient samples etc. shown in the accompanying Figures). In such assays, artisans may further wish to generate supplementary evidence of metastasis by testing the biological sample for the presence of a second tissue restricted marker (in addition to 184P1E2) such as PSA, PSCA etc. (see, e.g., Alanen et al., Pathol. Res. Pract. 192(3): 233-237 (1996)).

Just as PSA polynucleotide fragments and polynucleotide variants are employed by skilled artisans for use in methods of monitoring PSA, 184P1E2 polynucleotide fragments and polynucleotide variants are used in an analogous manner. In particular, typical PSA polynucleotides used in methods of monitoring PSA are probes or primers which consist of fragments of the PSA cDNA sequence. Illustrating this, primers used to PCR amplify a PSA polynucleotide must include less than the whole PSA sequence to function in the polymerase chain reaction. In the context of such PCR reactions, skilled artisans generally create a variety of different polynucleotide fragments that can be used as primers in order to amplify different portions of a polynucleotide of interest or to optimize amplification reactions (see, e.g., Caetano-Anolles, G. Biotechniques 25(3): 472-476, 478-480 (1998); Robertson et al., Methods Mol. Biol. 98:121-154 (1998)). An additional illustration of the use of such fragments is provided in the Example entitled “Expression analysis of 184P1E2 in normal tissues, and patient specimens,” where a 184P1E2 polynucleotide fragment is used as a probe to show the expression of 184P1E2 RNAs in cancer cells. In addition, variant polynucleotide sequences are typically used as primers and probes for the corresponding mRNAs in PCR and Northern analyses (see, e.g., Sawai et al., Fetal Diagn. Ther. 1996 November-December 11(6):407-13 and Current Protocols In Molecular Biology, Volume 2, Unit 2, Frederick M. Ausubel et al. eds., 1995)). Polynucleotide fragments and variants are useful in this context where they are capable of binding to a target polynucleotide sequence (e.g., a 184P1E2 polynucleotide shown in FIG. 2 or variant thereof) under conditions of high stringency.

Furthermore, PSA polypeptides which contain an epitope that can be recognized by an antibody or T cell that specifically binds to that epitope are used in methods of monitoring PSA. 184P1E2 polypeptide fragments and polypeptide analogs or variants can also be used in an analogous manner. This practice of using polypeptide fragments or polypeptide variants to generate antibodies (such as anti-PSA antibodies or T cells) is typical in the art with a wide variety of systems such as fusion proteins being used by practitioners (see, e.g., Current Protocols In Molecular Biology, Volume 2, Unit 16, Frederick M. Ausubel et al. eds., 1995). In this context, each epitope(s) functions to provide the architecture with which an antibody or T cell is reactive. Typically, skilled artisans create a variety of different polypeptide fragments that can be used in order to generate immune responses specific for different portions of a polypeptide of interest (see, e.g., U.S. Pat. No. 5,840,501 and U.S. Pat. No. 5,939,533). For example it may be preferable to utilize a polypeptide comprising one of the 184P1E2 biological motifs discussed herein or a motif-bearing subsequence which is readily identified by one of skill in the art based on motifs available in the art. Polypeptide fragments, variants or analogs are typically useful in this context as long as they comprise an epitope capable of generating an antibody or T cell specific for a target polypeptide sequence (e.g. a 184P1E2 polypeptide shown in FIG. 3).

As shown herein, the 184P1E2 polynucleotides and polypeptides (as well as the 184P1E2 polynucleotide probes and anti-184P1E2 antibodies or T cells used to identify the presence of these molecules) exhibit specific properties that make them useful in diagnosing cancers such as those listed in Table I. Diagnostic assays that measure the presence of 184P1E2 gene products, in order to evaluate the presence or onset of a disease condition described herein, such as prostate cancer, are used to identify patients for preventive measures or further monitoring, as has been done so successfully with PSA. Moreover, these materials satisfy a need in the art for molecules having similar or complementary characteristics to PSA in situations where, for example, a definite diagnosis of metastasis of prostatic origin cannot be made on the basis of a test for PSA alone (see, e.g., Alanen et al., Pathol. Res. Pract. 192(3): 233-237 (1996)), and consequently, materials such as 184P1E2 polynucleotides and polypeptides (as well as the 184P1E2 polynucleotide probes and anti-184P1E2 antibodies used to identify the presence of these molecules) need to be employed to confirm a metastases of prostatic origin.

Finally, in addition to their use in diagnostic assays, the 184P1E2 polynucleotides disclosed herein have a number of other utilities such as their use in the identification of oncogenetic associated chromosomal abnormalities in the chromosomal region to which the 184P1E2 gene maps (see the Example entitled “Chromosomal Mapping of 184P1E2” below). Moreover, in addition to their use in diagnostic assays, the 184P1E2-related proteins and polynucleotides disclosed herein have other utilities such as their use in the forensic analysis of tissues of unknown origin (see, e.g., Takahama K Forensic Sci Int 1996 Jun. 28; 80(1-2): 63-9).

Additionally, 184P1E2-related proteins or polynucleotides of the invention can be used to treat a pathologic condition characterized by the over-expression of 184P1E2. For example, the amino acid or nucleic acid sequence of FIG. 2 or FIG. 3, or fragments of either, can be used to generate an immune response to a 184P1E2 antigen. Antibodies or other molecules that react with 184P1E2 can be used to modulate the function of this molecule, and thereby provide a therapeutic benefit.

XII.) Inhibition of 184P1E2 Protein Function

The invention includes various methods and compositions for inhibiting the binding of 184P1E2 to its binding partner or its association with other protein(s) as well as methods for inhibiting 184P1E2 function.

XII.A.) Inhibition of 184P1E2 with Intracellular Antibodies

In one approach, a recombinant vector that encodes single chain antibodies that specifically bind to 184P1E2 are introduced into 184P1E2 expressing cells via gene transfer technologies. Accordingly, the encoded single chain anti-184P1E2 antibody is expressed intracellularly, binds to 184P1E2 protein, and thereby inhibits its function. Methods for engineering such intracellular single chain antibodies are well known. Such intracellular antibodies, also known as “intrabodies”, are specifically targeted to a particular compartment within the cell, providing control over where the inhibitory activity of the treatment is focused. This technology has been successfully applied in the art (for review, see Richardson and Marasco, 1995, TIBTECH vol. 13). Intrabodies have been shown to virtually eliminate the expression of otherwise abundant cell surface receptors (see, e.g., Richardson et al., 1995, Proc. Natl. Acad. Sci. USA 92: 3137-3141; Beerli et al., 1994, J. Biol. Chem. 289: 23931-23936; Deshane et al., 1994, Gene Ther. 1: 332-337).

Single chain antibodies comprise the variable domains of the heavy and light chain joined by a flexible linker polypeptide, and are expressed as a single polypeptide. Optionally, single chain antibodies are expressed as a single chain variable region fragment joined to the light chain constant region. Well-known intracellular trafficking signals are engineered into recombinant polynucleotide vectors encoding such single chain antibodies in order to precisely target the intrabody to the desired intracellular compartment. For example, intrabodies targeted to the endoplasmic reticulum (ER) are engineered to incorporate a leader peptide and, optionally, a C-terminal ER retention signal, such as the KDEL amino acid motif. Intrabodies intended to exert activity in the nucleus are engineered to include a nuclear localization signal. Lipid moieties are joined to intrabodies in order to tether the intrabody to the cytosolic side of the plasma membrane. Intrabodies can also be targeted to exert function in the cytosol. For example, cytosolic intrabodies are used to sequester factors within the cytosol, thereby preventing them from being transported to their natural cellular destination.

In one embodiment, intrabodies are used to capture 184P1E2 in the nucleus, thereby preventing its activity within the nucleus. Nuclear targeting signals are engineered into such 184P1E2 intrabodies in order to achieve the desired targeting. Such 184P1E2 intrabodies are designed to bind specifically to a particular 184P1E2 domain. In another embodiment, cytosolic intrabodies that specifically bind to a 184P1E2 protein are used to prevent 184P1E2 from gaining access to the nucleus, thereby preventing it from exerting any biological activity within the nucleus (e.g., preventing 184P1E2 from forming transcription complexes with other factors).

In order to specifically direct the expression of such intrabodies to particular cells, the transcription of the intrabody is placed under the regulatory control of an appropriate tumor-specific promoter and/or enhancer. In order to target intrabody expression specifically to prostate, for example, the PSA promoter and/or promoter/enhancer can be utilized (See, for example, U.S. Pat. No. 5,919,652 issued 6 Jul. 1999).

XII.B.) Inhibition of 184P1E2 with Recombinant Proteins

In another approach, recombinant molecules bind to 184P1E2 and thereby inhibit 184P1E2 function. For example, these recombinant molecules prevent or inhibit 184P1E2 from accessing/binding to its binding partner(s) or associating with other protein(s). Such recombinant molecules can, for example, contain the reactive part(s) of a 184P1E2 specific antibody molecule. In a particular embodiment, the 184P1E2 binding domain of a 184P1E2 binding partner is engineered into a dimeric fusion protein, whereby the fusion protein comprises two 184P1E2 ligand binding domains linked to the Fc portion of a human IgG, such as human IgG1. Such IgG portion can contain, for example, the C_(H)2 and C_(H)3 domains and the hinge region, but not the C_(H)1 domain. Such dimeric fusion proteins are administered in soluble form to patients suffering from a cancer associated with the expression of 184P1E2, whereby the dimeric fusion protein specifically binds to 184P1E2 and blocks 184P1E2 interaction with a binding partner. Such dimeric fusion proteins are further combined into multimeric proteins using known antibody linking technologies.

XII.C.) Inhibition of 184P1E2 Transcription or Translation

The present invention also comprises various methods and compositions for inhibiting the transcription of the 184P1E2 gene. Similarly, the invention also provides methods and compositions for inhibiting the translation of 184P1E2 mRNA into protein.

In one approach, a method of inhibiting the transcription of the 184P1E2 gene comprises contacting the 184P1E2 gene with a 184P1E2 antisense polynucleotide. In another approach, a method of inhibiting 184P1E2 mRNA translation comprises contacting a 184P1E2 mRNA with an antisense polynucleotide. In another approach, a 184P1E2 specific ribozyme is used to cleave a 184P1E2 message, thereby inhibiting translation. Such antisense and ribozyme based methods can also be directed to the regulatory regions of the 184P1E2 gene, such as 184P1E2 promoter and/or enhancer elements. Similarly, proteins capable of inhibiting a 184P1E2 gene transcription factor are used to inhibit 184P1E2 mRNA transcription. The various polynucleotides and compositions useful in the aforementioned methods have been described above. The use of antisense and ribozyme molecules to inhibit transcription and translation is well known in the art.

Other factors that inhibit the transcription of 184P1E2 by interfering with 184P1E2 transcriptional activation are also useful to treat cancers expressing 184P1E2. Similarly, factors that interfere with 184P1E2 processing are useful to treat cancers that express 184P1E2. Cancer treatment methods utilizing such factors are also within the scope of the invention.

XII.D.) General Considerations for Therapeutic Strategies

Gene transfer and gene therapy technologies can be used to deliver therapeutic polynucleotide molecules to tumor cells synthesizing 184P1E2 (i.e., antisense, ribozyme, polynucleotides encoding intrabodies and other 184P1E2 inhibitory molecules). A number of gene therapy approaches are known in the art. Recombinant vectors encoding 184P1E2 antisense polynucleotides, ribozymes, factors capable of interfering with 184P1E2 transcription, and so forth, can be delivered to target tumor cells using such gene therapy approaches.

The above therapeutic approaches can be combined with any one of a wide variety of surgical, chemotherapy or radiation therapy regimens. The therapeutic approaches of the invention can enable the use of reduced dosages of chemotherapy (or other therapies) and/or less frequent administration, an advantage for all patients and particularly for those that do not tolerate the toxicity of the chemotherapeutic agent well.

The anti-tumor activity of a particular composition (e.g., antisense, ribozyme, intrabody), or a combination of such compositions, can be evaluated using various in vitro and in vivo assay systems. In vitro assays that evaluate therapeutic activity include cell growth assays, soft agar assays and other assays indicative of tumor promoting activity, binding assays capable of determining the extent to which a therapeutic composition will inhibit the binding of 184P1E2 to a binding partner, etc.

In vivo, the effect of a 184P1E2 therapeutic composition can be evaluated in a suitable animal model. For example, xenogenic prostate cancer models can be used, wherein human prostate cancer explants or passaged xenograft tissues are introduced into immune compromised animals, such as nude or SCID mice (Klein et al., 1997, Nature Medicine 3: 402-408). For example, PCT Patent Application WO98/16628 and U.S. Pat. No. 6,107,540 describe various xenograft models of human prostate cancer capable of recapitulating the development of primary tumors, micrometastasis, and the formation of osteoblastic metastases characteristic of late stage disease. Efficacy can be predicted using assays that measure inhibition of tumor formation, tumor regression or metastasis, and the like.

In vivo assays that evaluate the promotion of apoptosis are useful in evaluating therapeutic compositions.

In one embodiment, xenografts from tumor bearing mice treated with the therapeutic composition can be examined for the presence of apoptotic foci and compared to untreated control xenograft-bearing mice. The extent to which apoptotic foci are found in the tumors of the treated mice provides an indication of the therapeutic efficacy of the composition.

The therapeutic compositions used in the practice of the foregoing methods can be formulated into pharmaceutical compositions comprising a carrier suitable for the desired delivery method. Suitable carriers include any material that when combined with the therapeutic composition retains the anti-tumor function of the therapeutic composition and is generally non-reactive with the patient's immune system. Examples include, but are not limited to, any of a number of standard pharmaceutical carriers such as sterile phosphate buffered saline solutions, bacteriostatic water, and the like (see, generally, Remington's Pharmaceutical Sciences 16^(th) Edition, A. Osal., Ed., 1980).

Therapeutic formulations can be solubilized and administered via any route capable of delivering the therapeutic composition to the tumor site. Potentially effective routes of administration include, but are not limited to, intravenous, parenteral, intraperitoneal, intramuscular, intratumor, intradermal, intraorgan, orthotopic, and the like. A preferred formulation for intravenous injection comprises the therapeutic composition in a solution of preserved bacteriostatic water, sterile unpreserved water, and/or diluted in polyvinylchloride or polyethylene bags containing 0.9% sterile Sodium Chloride for Injection, USP. Therapeutic protein preparations can be lyophilized and stored as sterile powders, preferably under vacuum, and then reconstituted in bacteriostatic water (containing for example, benzyl alcohol preservative) or in sterile water prior to injection.

Dosages and administration protocols for the treatment of cancers using the foregoing methods will vary with the method and the target cancer, and will generally depend on a number of other factors appreciated in the art.

XIII.) Kits

For use in the diagnostic and therapeutic applications described herein, kits are also within the scope of the invention. Such kits can comprise a carrier, package or container that is compartmentalized to receive one or more containers such as vials, tubes, and the like, each of the container(s) comprising one of the separate elements to be used in the method. For example, the container(s) can comprise a probe that is or can be detectably labeled. Such probe can be an antibody or polynucleotide specific for a 184P1E2-related protein or a 184P1E2 gene or message, respectively. Where the method utilizes nucleic acid hybridization to detect the target nucleic acid, the kit can also have containers containing nucleotide(s) for amplification of the target nucleic acid sequence and/or a container comprising a reporter-means, such as a biotin-binding protein, such as avidin or streptavidin, bound to a reporter molecule, such as an enzymatic, florescent, or radioisotope label. The kit can include all or part of the amino acid sequence of FIG. 2 or FIG. 3 or analogs thereof, or a nucleic acid molecules that encodes such amino acid sequences.

The kit of the invention will typically comprise the container described above and one or more other containers comprising materials desirable from a commercial and user standpoint, including buffers, diluents, filters, needles, syringes, and package inserts with instructions for use.

A label can be present on the container to indicate that the composition is used for a specific therapy or non-therapeutic application, and can also indicate directions for either in vivo or in vitro use, such as those described above. Directions and or other information can also be included on an insert which is included with the kit.

EXAMPLES

Various aspects of the invention are further described and illustrated by way of the several examples that follow, none of which are intended to limit the scope of the invention.

Example 1 SSH-Generated Isolation of a cDNA Fragment of the 184P1E2 Gene

To isolate genes that are over-expressed in bladder cancer, Suppression Subtractive Hybridization (SSH) procedure using cDNA derived from bladder cancer tissues, including invasive transitional cell carcinoma. The 184P1E2 SSH cDNA sequence was derived from a bladder cancer pool minus cDNAs derived normal bladder in addition to a pool of 9 normal tissues. The 184P1E2 cDNA was identified as highly expressed in the bladder cancer tissue pool, with no expression detected in normal tissues.

The SSH DNA sequence of 132 bp (FIG. 1) showed homology to peptidylarginine deiminase type III (AB026831) (FIG. 4A). 184P1E2 v.1 of 3183 bp was cloned from bladder cancer cDNA library, revealing an ORF of 664 amino acids (FIG. 2 and FIG. 3). The 184P1E2 v.1 protein is the same as the GenBank protein AB026831 with one amino acid difference at position 480 (FIG. 4B). Other variants of 184P1E2 were also identified, and these are listed in FIGS. 2 and 3. 184P1E2 v.3 is 100% identical to peptidylarginine deiminase type III Genbank protein AB026831 (see FIG. 4B and Table LIII).

Materials and Methods

Human Tissues:

The patient cancer and normal tissues were purchased from different sources such as the NDRI (Philadelphia, Pa.). mRNA for some normal tissues were purchased from Clontech, Palo Alto, Calif.

RNA Isolation:

Tissues were homogenized in Trizol reagent (Life Technologies, Gibco BRL) using 10 ml/g tissue isolate total RNA. Poly A RNA was purified from total RNA using Qiagen's Oligotex mRNA Mini and Midi kits. Total and mRNA were quantified by spectrophotometric analysis (O.D. 260/280 nm) and analyzed by gel electrophoresis.

Oligonucleotides:

The following HPLC purified oligonucleotides were used.

DPNCDN (cDNA synthesis primer): (SEQ ID NO: 33) 5′TTTTGATCAAGCTT₃₀3′ Adaptor 1: (SEQ ID NO: 34) 5′CTAATACGACTCACTATAGGGCTCGAGCGGCCGCCCGGGCAG3′ (SEQ ID NO: 35) 3′GGCCCGTCCTAG5′ Adaptor 2: (SEQ ID NO: 36) 5′GTAATACGACTCACTATAGGGCAGCGTGGTCGCGGCCGAG3′ (SEQ ID NO: 37) 3′CGGCTCCTAG5′ PCR primer 1: (SEQ ID NO: 38) 5′CTAATACGACTCACTATAGGGC3′ Nested primer (NP)1: (SEQ ID NO: 39) 5′TCGAGCGGCCGCCCGGGCAGGA3′ Nested primer (NP)2: (SEQ ID NO: 40) 5′AGCGTGGTCGCGGCCGAGGA3′

Suppression Subtractive Hybridization:

Suppression Subtractive Hybridization (SSH) was used to identify cDNAs corresponding to genes that may be differentially expressed in bladder cancer. The SSH reaction utilized cDNA from bladder cancer and normal tissues.

The gene 184P1E2 sequence was derived from a bladder cancer pool minus normal bladder cDNA subtraction. The SSH DNA sequence (FIG. 1) was identified.

The cDNA derived from of pool of normal tissues was used as the source of the “driver” cDNA, while the cDNA from a pool of bladder cancer tissues was used as the source of the “tester” cDNA. Double stranded cDNAs corresponding to tester and driver cDNAs were synthesized from 2 μg of poly(A)⁺ RNA isolated from the relevant xenograft tissue, as described above, using CLONTECH's PCR-Select cDNA Subtraction Kit and 1 ng of oligonucleotide DPNCDN as primer. First- and second-strand synthesis were carried out as described in the Kit's user manual protocol (CLONTECH Protocol No. PT1117-1, Catalog No. K1804-1). The resulting cDNA was digested with Dpn II for 3 hrs at 37° C. Digested cDNA was extracted with phenol/chloroform (1:1) and ethanol precipitated.

Driver cDNA was generated by combining in a 1:1 ratio Dpn II digested cDNA from the relevant tissue source (see above) with a mix of digested cDNAs derived from the nine normal tissues: stomach, skeletal muscle, lung, brain, liver, kidney, pancreas, small intestine, and heart.

Tester cDNA was generated by diluting 1 μl of Dpn II digested cDNA from the relevant tissue source (see above) (400 ng) in 5 μl of water. The diluted cDNA (2 μl, 160 ng) was then ligated to 2 μl of Adaptor 1 and Adaptor 2 (10 μM), in separate ligation reactions, in a total volume of 10111 at 16° C. overnight, using 400 u of T4 DNA ligase (CLONTECH). Ligation was terminated with 1 μl of 0.2 M EDTA and heating at 72° C. for 5 min.

The first hybridization was performed by adding 1.5 μl (600 ng) of driver cDNA to each of two tubes containing 1.5 μl (20 ng) Adaptor 1- and Adaptor 2-ligated tester cDNA. In a final volume of 4 μl, the samples were overlaid with mineral oil, denatured in an MJ Research thermal cycler at 98° C. for 1.5 minutes, and then were allowed to hybridize for 8 hrs at 68° C. The two hybridizations were then mixed together with an additional 1 μl of fresh denatured driver cDNA and were allowed to hybridize overnight at 68° C. The second hybridization was then diluted in 2001 of 20 mM Hepes, pH 8.3, 50 mM NaCl, 0.2 mM EDTA, heated at 70° C. for 7 min. and stored at −20° C.

PCR Amplification, Cloning and Sequencing of Gene Fragments Generated from SSH:

To amplify gene fragments resulting from SSH reactions, two PCR amplifications were performed. In the primary PCR reaction 1 μl of the diluted final hybridization mix was added to 1 μl of PCR primer 1 (10 μM), 0.5 μl dNTP mix (10 μM), 2.5 μl 10× reaction buffer (CLONTECH) and 0.5 μl 50× Advantage cDNA polymerase Mix (CLONTECH) in a final volume of 25 μl. PCR 1 was conducted using the following conditions: 75° C. for 5 min., 94° C. for 25 sec., then 27 cycles of 94° C. for 10 sec, 66° C. for 30 sec, 72° C. for 1.5 min. Five separate primary PCR reactions were performed for each experiment. The products were pooled and diluted 1:10 with water. For the secondary PCR reaction, 1 μl from the pooled and diluted primary PCR reaction was added to the same reaction mix as used for PCR 1, except that primers NP1 and NP2 (10 μM) were used instead of PCR primer 1. PCR 2 was performed using 10-12 cycles of 94° C. for 10 sec, 68° C. for 30 sec, and 72° C. for 1.5 minutes. The PCR products were analyzed using 2% agarose gel electrophoresis.

The PCR products were inserted into pCR2.1 using the T/A vector cloning kit (Invitrogen). Transformed E. coli were subjected to blue/white and ampicillin selection. White colonies were picked and arrayed into 96 well plates and were grown in liquid culture overnight. To identify inserts, PCR amplification was performed on 1 ul of bacterial culture using the conditions of PCR1 and NP1 and NP2 as primers. PCR products were analyzed using 2% agarose gel electrophoresis.

Bacterial clones were stored in 20% glycerol in a 96 well format. Plasmid DNA was prepared, sequenced, and subjected to nucleic acid homology searches of the GenBank, dBest, and NCI-CGAP databases.

RT-PCR Expression Analysis:

First strand cDNAs can be generated from 1 μg of mRNA with oligo (dT)12-18 priming using the Gibco-BRL Superscript Preamplification system. The manufacturer's protocol was used which included an incubation for 50 min at 42° C. with reverse transcriptase followed by RNAse H treatment at 37° C. for 20 min. After completing the reaction, the volume can be increased to 200 μl with water prior to normalization. First strand cDNAs from 16 different normal human tissues can be obtained from Clontech.

Normalization of the first strand cDNAs from multiple tissues was performed by using the primers 5′atatcgccgcgctcgtcgtcgacaa3′ (SEQ ID NO: 41) and 5′agccacacgcagctcattgtagaagg 3′ (SEQ ID NO: 42) to amplify β-actin. First strand cDNA (5 μl) were amplified in a total volume of 50 μl containing 0.4 μM primers, 0.2 μM each dNTPs, 1×PCR buffer (Clontech, 10 mM Tris-HCL, 1.5 mM MgCl₂, 50 mM KCl, pH8.3) and 1× Klentaq DNA polymerase (Clontech). Five μl of the PCR reaction can be removed at 18, 20, and 22 cycles and used for agarose gel electrophoresis. PCR was performed using an MJ Research thermal cycler under the following conditions: Initial denaturation can be at 94° C. for 15 sec, followed by a 18, 20, and 22 cycles of 94° C. for 15, 65° C. for 2 min, 72° C. for 5 sec. A final extension at 72° C. was carried out for 2 min. After agarose gel electrophoresis, the band intensities of the 283 b.p. β-actin bands from multiple tissues were compared by visual inspection. Dilution factors for the first strand cDNAs were calculated to result in equal β-actin band intensities in all tissues after 22 cycles of PCR. Three rounds of normalization can be required to achieve equal band intensities in all tissues after 22 cycles of PCR.

To determine expression levels of the 184P1E2 gene, 5 μl of normalized first strand cDNA were analyzed by PCR using 26, and 30 cycles of amplification. Semi-quantitative expression analysis can be achieved by comparing the PCR products at cycle numbers that give light band intensities. The primers used for RT-PCR were designed using the 184P1E2 SSH sequence and are listed below:

184P1E2.1 5′- AGTGACATGGAAGGAGATGAGTCC -3′ (SEQ ID NO: 43) 184P1E2.2 5′- ATACCTCCAGCTATGATGCCAAAC -3′ (SEQ ID NO: 44)

A typical RT-PCR expression analysis is shown in FIG. 14. First strand cDNA was prepared from vital pool 1 (liver, lung and kidney), vital pool 2 (pancreas, colon and stomach), bladder cancer pool, kidney cancer pool, lung cancer pool, and cancer metastasis pool. Normalization was performed by PCR using primers to actin and GAPDH. Semi-quantitative PCR, using primers to 184P1E2, was performed at 26 and 30 cycles of amplification. Results show strong expression of 184P1E2 in bladder cancer pool. Expression of 184P1E2 is also detected in kidney cancer pool, lung cancer pool and cancer metastasis pool, but not in vital pool 1 and vital pool 2.

Example 2 Full Length Cloning of 184P1E2

The 184P1E2 SSH cDNA sequence was derived from a bladder cancer pool minus normal bladder cDNA subtraction. The SSH cDNA sequence (FIG. 1) was designated 184P1E2.

The SSH DNA sequence of 132 bp (FIG. 1) showed homology to peptidylarginine deiminase type III (AB026831) (FIG. 4A). 184P1E2 v.1 of 3183 bp was cloned from bladder cancer cDNA library, revealing an ORF of 664 amino acids (FIG. 2 and FIG. 3). The 184P1E2 v.1 protein is the same as the GenBank protein AB026831 with one amino acid difference at position 480 (FIG. 4B). Other variants of 184P1E2 were also identified, and these are listed in FIGS. 2 and 3. 184P1E2 v.3 is 100% identical to peptidylarginine deiminase type III Genbank protein AB026831 (see FIG. 4B and Table LIII).

184P1E2 v.1 is 87% identical and 93% homologous to the mouse peptidylarginine deiminase type III protein. The amino acid alignment of these two proteins is shown in FIG. 4C.

Example 3 Chromosomal Mapping of 184P1E2

Chromosomal localization can implicate genes in disease pathogenesis. Several chromosome mapping approaches are available including fluorescent in situ hybridization (FISH), human/hamster radiation hybrid (RH) panels (Walter et al., 1994; Nature Genetics 7:22; Research Genetics, Huntsville Ala.), human-rodent somatic cell hybrid panels such as is available from the Coriell Institute (Camden, N.J.), and genomic viewers utilizing BLAST homologies to sequenced and mapped genomic clones (NCBI, Bethesda, Md.).

184P1E2 maps to chromosome 1p36.13 using 184P1E2 sequence and the NCBI BLAST tool at the National Institutes of Health website.

Example 4 Expression Analysis of 184P1E2 in Normal Tissues and Patient Specimens

Expression analysis by RT-PCR demonstrated that 184P1E2 is strongly expressed in bladder cancer patient specimens (FIG. 14). First strand cDNA was prepared from vital pool 1 (liver, lung and kidney), vital pool 2 (pancreas, colon and stomach), bladder cancer pool, kidney cancer pool, lung cancer pool, and cancer metastasis pool. Normalization was performed by PCR using primers to actin and GAPDH. Semi-quantitative PCR, using primers to 184P1E2, was performed at 26 and 30 cycles of amplification. Results show strong expression of 184P1E2 in bladder cancer pool. Expression of 184P1E2 is also detected in kidney cancer pool, lung cancer pool and cancer metastasis pool but not in vital pool 1 and vital pool 2.

Extensive northern blot analysis of 184P1E2 in multiple human normal tissues is shown in FIG. 15. No expression was detected in all 16 normal tissues tested.

Expression of 184P1E2 in bladder cancer patient specimens and human normal tissues is shown in FIG. 16. RNA was extracted from a pool of three bladder cancers, as well as from normal prostate (NP), normal bladder (NB), normal kidney (NK), normal colon (NC), normal lung (NL) normal breast (NBr) and normal ovary (NO). Northern blot with 10 ug of total RNA/lane was probed with 184P1E2 sequence. The results show expression of an approximately 4.5 kb 184P1E2 transcript in the bladder cancer pool but not in the normal tissues tested. Analysis of individual patient specimens is shown in FIG. 17. RNA was extracted from normal bladder (NB), bladder cancer cell lines (CL; UM-UC-3, J82 and SCaBER), bladder cancer patient tumors (T) and normal tissue adjacent to bladder cancer (N). Northern blots with 10 ug of total RNA were probed with the 184P1E2 sequence. Size standards in kilobases are indicated on the side. Results show strong expression of 184P1E2 in the bladder tumor tissues but not in normal bladder, nor in the bladder cancer cell lines.

FIG. 18 shows that 184P1E2 was expressed in lung cancer patient tissues. RNA was extracted from normal lung (N), lung cancer cell lines (CALU-1, A427, NCI-H82, NCI-146) (all referred to as “CL”), lung cancer patient tumors (T) and their normal adjacent tissues (Nat). Northern blots with 10 ug of total RNA were probed with the 184P1E2 sequence. Results show strong expression of 184P1E2 in the lung cancer patient tissues, but not in normal lung. A lower molecular weight transcript of approximately 2.0 kb was also detected in the two lung cancer cell lines CALU-1 and NCI-H146.

The restricted expression of 184P1E2 in normal tissues and the expression detected in bladder cancer, lung cancer, kidney cancer, and cancer metastases suggest that 184P1E2 is a potential therapeutic target and a diagnostic marker for human cancers.

Example 5 Transcript Variants of 184P1E2

Transcript variants are variants of matured mRNA from the same gene by alternative transcription or alternative splicing. Alternative transcripts are transcripts from the same gene but start transcription at different points. Splice variants are mRNA variants spliced differently from the same transcript. In eukaryotes, when a multi-exon gene is transcribed from genomic DNA, the initial RNA is spliced to produce functional mRNA, which has only exons and is used for translation into an amino acid sequence. Accordingly, a given gene can have zero to many alternative transcripts and each transcript can have zero to many splice variants. Each transcript variant has a unique exon makeup, and can have different coding and/or non-coding (5′ or 3′ end) portions, from the original transcript. Transcript variants can code for similar or different proteins with the same or a similar function or may encode proteins with different functions, and may be expressed in the same tissue at the same time, or at different tissue, or at different times, proteins encoded by transcript variants can have similar or different cellular or extracellular localizations, i.e., be secreted.

Transcript variants are identified by a variety of art-accepted methods. For example, alternative transcripts and splice variants are identified in a full-length cloning experiment, or by use of full-length transcript and EST sequences. First, all human ESTs were grouped into clusters which show direct or indirect identity with each other. Second, ESTs in the same cluster were further grouped into sub-clusters and assembled into a consensus sequence. The original gene sequence is compared to the consensus sequence(s) or other full-length sequences. Each consensus sequence is a potential splice variant for that gene. Even when a variant is identified that is not a full-length clone, that portion of the variant is useful for antigen generation and for further cloning of the full-length splice variant, using techniques known in the art.

Moreover, computer programs are available in the art that identify transcript variants based on genomic sequences. Genomic-based transcript variant identification programs include FgenesH (A. Salamov and V. Solovyev, “Ab initio gene finding in Drosophila genomic DNA,” Genome Research. 2000 April; 10(4):516-22); Grail and GenScan on the INTERNET. For a general discussion of splice variant identification protocols see., e.g., Southan, C., A genomic perspective on human proteases, FEBS Lett. 2001 Jun. 8; 498(2-3):214-8; de Souza, S. J., et al., Identification of human chromosome 22 transcribed sequences with ORF expressed sequence tags, Proc. Natl. Acad Sci USA. 2000 Nov. 7; 97(23):12690-3.

To further confirm the parameters of a transcript variant, a variety of techniques are available in the art, such as full-length cloning, proteomic validation, PCR-based validation, and 5′ RACE validation, etc. (see e.g., Proteomic Validation Brennan, S. O., et al., Albumin banks peninsula: a new termination variant characterized by electrospray mass spectrometry, Biochem Biophys Acta. 1999 Aug. 17; 1433(1-2):321-6; Ferranti P, et al., Differential splicing of pre-messenger RNA produces multiple forms of mature caprine alpha(s1)-casein, Eur J. Biochem. 1997 Oct. 1; 249(1):1-7. For PCR-based Validation: Wellmann S, et al., Specific reverse transcription-PCR quantification of vascular endothelial growth factor (VEGF) splice variants by LightCycler technology, Clin Chem. 2001 April; 47(4):654-60; Jia, H. P., et al., Discovery of new human beta-defensins using a genomics-based approach, Gene. 2001 Jan. 24; 263(1-2):211-8. For PCR-based and 5′ RACE Validation: Brigle, K. E., et al., Organization of the murine reduced folate carrier gene and identification of variant splice forms, Biochem Biophys Acta. 1997 Aug. 7; 1353(2): 191-8).

It is known in the art that genomic regions are modulated in cancers. When the genomic region, to which a gene maps, is modulated in a particular cancer, the alternative transcripts or splice variants of the gene are modulated as well. Disclosed herein is that 184P1E2 has a particular expression profile related to cancer. Alternative transcripts and splice variants of 184P1E2 may also be involved in cancers in the same or different tissues, thus serving as tumor-associated markers/antigens.

The exon composition of the original transcript, designated as 184P1E2 v.1, is shown in FIG. 12.

Example 6 Single Nucleotide Polymorphisms of 184P1E2

A Single Nucleotide Polymorphism (SNP) is a single base pair variation in nucleotide sequences. At a specific point of the genome, there are four possible nucleotide base pairs: A/T, C/G, G/C and T/A. Genotype refers to the base pair make-up of one or more spots in the genome of an individual, while haplotype refers to base pair make-up of more than one varied spots on the same DNA molecule (chromosome in higher organism). SNPs that occur on a cDNA are called cSNPs. These cSNPs may change amino acids of the protein encoded by the gene and thus change the functions of the protein. Some SNPs cause inherited diseases and some others contribute to quantitative variations in phenotype and reactions to environmental factors including diet and drugs among individuals. Therefore, SNPs and/or combinations of alleles (called haplotypes) have many applications including diagnosis of inherited diseases, determination of drug reactions and dosage, identification of genes responsible for disearses and discovery of genetic relationship between individuals (P. Nowotny, J. M. Kwon and A. M. Goate, “SNP analysis to dissect human traits,” Curr. Opin. Neurobiol. 2001 October; 11(5):637-641; M. Pirmohamed and B. K. Park, “Genetic susceptibility to adverse drug reactions,” Trends Pharmacol. Sci. 2001 June; 22(6):298-305; J. H. Riley, C. J. Allan, E. Lai and A. Roses, “The use of single nucleotide polymorphisms in the isolation of common disease genes,” Pharmacogenomics. 2000 February; 1(1):39-47; R. Judson, J. C. Stephens and A. Windemuth, “The predictive power of haplotypes in clinical response,” Pharmacogenomics. 2000 feb; 1(1):15-26).

SNPs are identified by a variety of art-accepted methods (P. Bean, “The promising voyage of SNP target discovery,” Am. Clin. Lab. 2001 October-November; 20(9):18-20; K. M. Weiss, “In search of human variation,” Genome Res. 1998 July; 8(7):691-697; M. M. She, “Enabling large-scale pharmacogenetic studies by high-throughput mutation detection and genotyping technologies,” Clin. Chem. 2001 February; 47(2): 164-172). For example, SNPs are identified by sequencing DNA fragments that show polymorphism by gel-based methods such as restriction fragment length polymorphism (RFLP) and denaturing gradient gel electrophoresis (DGGE). They can also be discovered by direct sequencing of DNA samples pooled from different individuals or by comparing sequences from different DNA samples. With the rapid accumulation of sequence data in public and private databases, one can discover SNPs by comparing sequences using computer programs (Z. Gu, L. Hillier and P. Y. Kwok, “Single nucleotide polymorphism hunting in cyberspace,” Hum. Mutat. 1998; 12(4):221-225). SNPs can be verified and genotype or haplotype of an individual can be determined by a variety of methods including direct sequencing and high throughput microarrays (P. Y. Kwok, “Methods for genotyping single nucleotide polymorphisms,” Annu. Rev. Genomics Hum. Genet. 2001; 2:235-258; M. Kokoris, K. Dix, K. Moynihan, J. Mathis, B. Erwin, P. Grass, B. Hines and A. Duesterhoeft, “High-throughput SNP genotyping with the Masscode system,” Mol. Diagn. 2000 December; 5(4):329-340).

Using the methods described above, nine SNPs were identified in the transcript, 184P1E2 v.1, at positions 951 (C/G), 1480 (C/T), 1910 (T/G), 2468 (C/T), 2623 (T/G), 2742 (G/T), 2924 (A/C), 3060 (C/A) and 356 (G/A). The transcripts with alternative alleles were designated as variants 184P1E2 v.2, v.3, v.4, v.5, v.6, v.7, v.8, v.9, and v.10, respectively. FIG. 10 shows the schematic alignment of the nucleotide variants. FIG. 11 shows the schematic alignment of protein variants, corresponding to nucleotide variants. Nucleotide variants that code for the same amino acid sequence as variant 1 are not shown in FIG. 11. These alleles of the SNPs, though shown separately here, can occur in different combinations (haplotypes) and in any other transcript variants that contains the sequence context of the SNPs.

Example 7 Production of Recombinant 184P1E2 in Prokaryotic Systems

To express recombinant 184P1E2 and 184P1E2 variants in prokaryotic cells, the full or partial length 184P1E2 and 184P1E2 variant cDNA sequences are cloned into any one of a variety of expression vectors known in the art. One or more of the following regions of 184P1E2 amino acids 1-664; or any 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30 or more contiguous amino acids from 184P1E2, variants, or analogs thereof.

A. In Vitro Transcription and Translation Constructs:

pCRII: To generate 184P1E2 sense and anti-sense RNA probes for RNA in situ investigations, pCRII constructs (Invitrogen, Carlsbad Calif.) are generated encoding either all or fragments of the 184P1E2 cDNA. The pCRII vector has Sp6 and T7 promoters flanking the insert to drive the transcription of 184P1E2 RNA for use as probes in RNA in situ hybridization experiments. These probes are used to analyze the cell and tissue expression of 184P1E2 at the RNA level. Transcribed 184P1E2 RNA representing the cDNA amino acid coding region of the 184P1E2 gene is used in in vitro translation systems such as the TnT™ Coupled Reticulolysate System (Promega, Corp., Madison, Wis.) to synthesize 184P1E2 protein.

B. Bacterial Constructs:

pGEX Constructs: To generate recombinant 184P1E2 proteins in bacteria that are fused to the Glutathione S-transferase (GST) protein, all or parts of the T-fusion vector of the pGEX family (Amersham Pharmacia Biotech, Piscataway, N.J.). These constructs allow controlled expression of recombinant 184P1E2 protein sequences with GST fused at the amino-terminus and a six histidine epitope (6×His) at the carboxyl-terminus. The GST and 6×His tags permit purification of the recombinant fusion protein from induced bacteria with the appropriate affinity matrix and allow recognition of the fusion protein with anti-GST and anti-His antibodies. The 6×His tag is generated by adding 6 histidine codons to the cloning primer at the 3′ end, e.g., of the open reading frame (ORF). A proteolytic cleavage site, such as the PreScission™ recognition site in pGEX-6P-1, may be employed such that it permits cleavage of the GST tag from 184P1E2-related protein. The ampicillin resistance gene and pBR322 origin permits selection and maintenance of the pGEX plasmids in E. coli.

pMAL Constructs: To generate, in bacteria, recombinant 184P1E2 proteins that are fused to maltose-binding protein (MBP), all or parts of the 184P1E2 cDNA protein coding sequence are fused to the MBP gene by cloning into the pMAL-c2X and pMAL-p2X vectors (New England Biolabs, Beverly, Mass.). These constructs allow controlled expression of recombinant 184P1E2 protein sequences with MBP fused at the amino-terminus and a 6×His epitope tag at the carboxyl-terminus. The MBP and 6×His tags permit purification of the recombinant protein from induced bacteria with the appropriate affinity matrix and allow recognition of the fusion protein with anti-MBP and anti-His antibodies. The 6×His epitope tag is generated by adding 6 histidine codons to the 3′ cloning primer. A Factor Xa recognition site permits cleavage of the pMAL tag from 184P1E2. The pMAL-c2X and pMAL-p2X vectors are optimized to express the recombinant protein in the cytoplasm or periplasm respectively. Periplasm expression enhances folding of proteins with disulfide bonds.

pET Constructs: To express 184P1E2 in bacterial cells, all or parts of the 184P1E2 cDNA protein coding sequence are cloned into the pET family of vectors (Novagen, Madison, Wis.). These vectors allow tightly controlled expression of recombinant 184P1E2 protein in bacteria with and without fusion to proteins that enhance solubility, such as NusA and thioredoxin (Trx), and epitope tags, such as 6×His and S-Tag™ that aid purification and detection of the recombinant protein. For example, constructs are made utilizing pET NusA fusion system 43.1 such that regions of the 184P1E2 protein are expressed as amino-terminal fusions to NusA.

C. Yeast Constructs:

pESC Constructs: To express 184P1E2 in the yeast species Saccharomyces cerevisiae for generation of recombinant protein and functional studies, all or parts of the 184P1E2 cDNA protein coding sequence are cloned into the pESC family of vectors each of which contain 1 of 4 selectable markers, HIS3, TRP1, LEU2, and URA3 (Stratagene, La Jolla, Calif.). These vectors allow controlled expression from the same plasmid of up to 2 different genes or cloned sequences containing either Flag™ or Myc epitope tags in the same yeast cell. This system is useful to confirm protein-protein interactions of 184P1E2. In addition, expression in yeast yields similar post-translational modifications, such as glycosylations and phosphorylations, that are found when expressed in eukaryotic cells.

pESP Constructs: To express 184P1E2 in the yeast species Saccharomyces pombe, all or parts of the 184P1E2 cDNA protein coding sequence are cloned into the pESP family of vectors. These vectors allow controlled high level of expression of a 184P1E2 protein sequence that is fused at either the amino terminus or at the carboxyl terminus to GST which aids purification of the recombinant protein. A Flag™ epitope tag allows detection of the recombinant protein with anti-Flag™ antibody.

Example 8 Production of Recombinant 184P1E2 in Eukaryotic Systems

A. Mammalian Constructs:

To express recombinant 184P1E2 in eukaryotic cells, the full or partial length 184P1E2 cDNA sequences can be cloned into any one of a variety of expression vectors . known in the art. One or more of the following regions of 184P1E2 are expressed in these constructs, amino acids 1 to 664, or any 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50 or more contiguous amino acids from 184P1E2, variants, or analogs thereof. In certain embodiments a region of a specific variant of 184P1E2 is expressed that encodes an amino acid at a specific position which differs from the amino acid of any other variant found at that position. In other embodiments, a region of a variant of 184P1E2 is expressed that lies partly or entirely within a sequence that is unique to that variant.

The constructs can be transfected into any one of a wide variety of mammalian cells such as 293T cells. Transfected 293T cell lysates can be probed with the anti-184P1E2 polyclonal serum, described herein.

pcDNA4/HisMax Constructs: To express 184P1E2 in mammalian cells, a 184P1E2 ORF, or portions thereof, of 184P1E2 are cloned into pcDNA4/HisMax Version A (Invitrogen, Carlsbad, Calif.). Protein expression is driven from the cytomegalovirus (CMV) promoter and the SP16 translational enhancer. The recombinant protein has Xpress™ and six histidine (6×His) epitopes fused to the amino-terminus. The pcDNA4/HisMax vector also contains the bovine growth hormone (BGH) polyadenylation signal and transcription termination sequence to enhance mRNA stability along with the SV40 origin for episomal replication and simple vector rescue in cell lines expressing the large T antigen. The Zeocin resistance gene allows for selection of mammalian cells expressing the protein and the ampicillin resistance gene and ColE1 origin permits selection and maintenance of the plasmid in E. coli.

pcDNA3.1/MycHis Constructs: To express 184P1E2 in mammalian cells, a 184P1E2 ORF, or portions thereof, of 184P1E2 with a consensus Kozak translation initiation site are cloned into pcDNA3.1/MycHis Version A (Invitrogen, Carlsbad, Calif.). Protein expression is driven from the cytomegalovirus (CMV) promoter. The recombinant proteins have the myc epitope and 6×His epitope fused to the carboxyl-terminus. The pcDNA3.1/MycHis vector also contains the bovine growth hormone (BGH) polyadenylation signal and transcription termination sequence to enhance mRNA stability, along with the SV40 origin for episomal replication and simple vector rescue in cell lines expressing the large T antigen. The Neomycin resistance gene can be used, as it allows for selection of mammalian cells expressing the protein and the ampicillin resistance gene and ColE1 origin permits selection and maintenance of the plasmid in E. coli.

pcDNA3.1/CT-GFP-TOPO Construct: To express 184P1E2 in mammalian cells and to allow detection of the recombinant proteins using fluorescence, a 184P1E2 ORF, or portions thereof, with a consensus Kozak translation initiation site are cloned into pcDNA3.1/CT-GFP-TOPO (Invitrogen, CA). Protein expression is driven from the cytomegalovirus (CMV) promoter. The recombinant proteins have the Green Fluorescent Protein (GFP) fused to the carboxyl-terminus facilitating non-invasive, in vivo detection and cell biology studies. The pcDNA3.1CT-GFP-TOPO vector also contains the bovine growth hormone (BGH) polyadenylation signal and transcription termination sequence to enhance mRNA stability along with the SV40 origin for episomal replication and simple vector rescue in cell lines expressing the large T antigen. The Neomycin resistance gene allows for selection of mammalian cells that express the protein, and the ampicillin resistance gene and ColE1 origin permits selection and maintenance of the plasmid in E. coli. Additional constructs with an amino-terminal GFP fusion are made in pcDNA3.1/NT-GFP-TOPO spanning the entire length of a 184P1E2 protein.

PAPtag: A 184P1E2 ORF, or portions thereof, is cloned into pAPtag-5 (GenHunter Corp. Nashville, Tenn.). This construct generates an alkaline phosphatase fusion at the carboxyl-terminus of a 184P1E2 protein while fusing the IgGκ signal sequence to the amino-terminus. Constructs are also generated in which alkaline phosphatase with an amino-terminal IgGK signal sequence is fused to the amino-terminus of a 184P1E2 protein. The resulting recombinant 184P1E2 proteins are optimized for secretion into the media of transfected mammalian cells and can be used to identify proteins such as ligands or receptors that interact with 184P1E2 proteins. Protein expression is driven from the CMV promoter and the recombinant proteins also contain myc and 6×His epitopes fused at the carboxyl-terminus that facilitates detection and purification. The Zeocin resistance gene present in the vector allows for selection of mammalian cells expressing the recombinant protein and the ampicillin resistance gene permits selection of the plasmid in E. coli.

ptag5: A 184P1E2 ORF, or portions thereof, is cloned into pTag-5. This vector is similar to pAPtag but without the alkaline phosphatase fusion. This construct generates 184P1E2 protein with an amino-terminal IgGκ signal sequence and myc and 6×His epitope tags at the carboxyl-terminus that facilitate detection and affinity purification. The resulting recombinant 184P1E2 protein is optimized for secretion into the media of transfected mammalian cells, and is used as immunogen or ligand to identify proteins such as ligands or receptors that interact with the 184P1E2 proteins. Protein expression is driven from the CMV promoter. The Zeocin resistance gene present in the vector allows for selection of mammalian cells expressing the protein, and the ampicillin resistance gene permits selection of the plasmid in E. coli.

PsecFe: A 184P1E2 ORF, or portions thereof, is also cloned into psecFc. The psecFc vector was assembled by cloning the human immunoglobulin G1 (IgG) Fc (hinge, CH2, CH3 regions) into pSecTag2 (Invitrogen, California). This construct generates an IgG1 Fc fusion at the carboxyl-terminus of the 184P1E2 proteins, while fusing the IgGK signal sequence to N-terminus. 184P1E2 fusions utilizing the murine IgG1 Fc region are also used. The resulting recombinant 184P1E2 proteins are optimized for secretion into the media of transfected mammalian cells, and can be used as immunogens or to identify proteins such as ligands or receptors that interact with 184P1E2 protein. Protein expression is driven from the CMV promoter. The hygromycin resistance gene present in the vector allows for selection of mammalian cells that express the recombinant protein, and the ampicillin resistance gene permits selection of the plasmid in E. coli.

pSRα Constructs: To generate mammalian cell lines that express 184P1E2 constitutively, 184P1E2 ORF, or portions thereof, of 184P1E2 are cloned into pSRα constructs. Amphotropic and ecotropic retroviruses are generated by transfection of pSRα constructs into the 293T-10A1 packaging line or co-transfection of pSRα and a helper plasmid (containing deleted packaging sequences) into the 293 cells, respectively. The retrovirus is used to infect a variety of mammalian cell lines, resulting in the integration of the cloned gene, 184P1E2, into the host cell-lines. Protein expression is driven from a long terminal repeat (LTR). The Neomycin resistance gene present in the vector allows for selection of mammalian cells that express the protein, and the ampicillin resistance gene and ColE1 origin permit selection and maintenance of the plasmid in E. coli. The retroviral vectors can thereafter be used for infection and generation of various cell lines using, for example, PC3, NIH 3T3, TsuPr1, 293 or rat-1 cells.

Additional pSRα constructs are made that fuse an epitope tag such as the FLAG™ tag to the carboxyl-terminus of 184P1E2 sequences to allow detection using anti-Flag antibodies. For example, the FLAG™ sequence 5′ gat tac aag gat gac gac gat aag 3′ (SEQ ID NO: 45) is added to cloning primer at the 3′ end of the ORF. Additional pSRα constructs are made to produce both amino-terminal and carboxyl-terminal GFP and myc/6×His fusion proteins of the full-length 184P1E2 proteins.

Additional Viral Vectors: Additional constructs are made for viral-mediated delivery and expression of 184P1E2. High virus titer leading to high level expression of 184P1E2 is achieved in viral delivery systems such as adenoviral vectors and herpes amplicon vectors. A 184P1E2 coding sequences or fragments thereof are amplified by PCR and subcloned into the AdEasy shuttle vector (Stratagene). Recombination and virus packaging are performed according to the manufacturer's instructions to generate adenoviral vectors. Alternatively, 184P1E2 coding sequences or fragments thereof are cloned into the HSV-1 vector (Imgenex) to generate herpes viral vectors. The viral vectors are thereafter used for infection of various cell lines such as PC3, NIH 3T3, 293 or rat-1 cells.

Regulated Expression Systems: To control expression of 184P1E2 in mammalian cells, coding sequences of 184P1E2, or portions thereof, are cloned into regulated mammalian expression systems such as the T-Rex System (Invitrogen), the GeneSwitch System (Invitrogen) and the tightly-regulated Ecdysone System (Sratagene). These systems allow the study of the temporal and concentration dependent effects of recombinant 184P1E2. These vectors are thereafter used to control expression of 184P1E2 in various cell lines such as PC3, NIH 3T3, 293 or rat-1 cells.

B. Baculovirus Expression Systems

To generate recombinant 184P1E2 proteins in a baculovirus expression system, 184P1E2 ORF, or portions thereof, are cloned into the baculovirus transfer vector pBlueBac 4.5 (Invitrogen), which provides a His-tag at the N-terminus. Specifically, pBlueBac-184P1E2 is co-transfected with helper plasmid pBac-N-Blue (Invitrogen) into SF9 (Spodoptera frugiperda) insect cells to generate recombinant baculovirus (see Invitrogen instruction manual for details). Baculovirus is then collected from cell supernatant and purified by plaque assay.

Recombinant 184P1E2 protein is then generated by infection of HighFive insect cells (Invitrogen) with purified baculovirus. Recombinant 184P1E2 protein can be detected using anti-184P1E2 or anti-His-tag antibody. 184P1E2 protein can be purified and used in various cell-based assays or as immunogen to generate polyclonal and monoclonal antibodies specific for 184P1E2.

Example 9 Antigenicity Profiles and Secondary Structure

FIG. 5, FIG. 6, FIG. 7, FIG. 8, and FIG. 9 depict graphically five amino acid profiles of the 184P1E2 variants 1 through 4 respectively, each assessment available by accessing the ProtScale website on the ExPasy molecular biology server.

These profiles: FIG. 5, Hydrophilicity, (Hopp T. P., Woods K. R., 1981. Proc. Natl. Acad. Sci. U.S.A. 78:3824-3828); FIG. 6, Hydropathicity, (Kyte J., Doolittle R. F., 1982. J. Mol. Biol. 157:105-132); FIG. 7, Percentage Accessible Residues (Janin J., 1979 Nature 277:491-492); FIG. 8, Average Flexibility, (Bhaskaran R., and Ponnuswamy P. K., 1988. Int. J. Pept. Protein Res. 32:242-255); FIG. 9, Beta-turn (Deleage, G., Roux B. 1987 Protein Engineering 1:289-294); and optionally others available in the art, such as on the ProtScale website, were used to identify antigenic regions of the 184P1E2 protein. Each of the above amino acid profiles of 184P1E2 were generated using the following ProtScale parameters for analysis: 1) A window size of 9; 2) 100% weight of the window edges compared to the window center; and, 3) amino acid profile values normalized to lie between 0 and 1.

Hydrophilicity (FIG. 5), Hydropathicity (FIG. 6) and Percentage Accessible Residues (FIG. 7) profiles were used to determine stretches of hydrophilic amino acids (i.e., values greater than 0.5 on the Hydrophilicity and Percentage Accessible Residues profile, and values less than 0.5 on the Hydropathicity profile). Such regions are likely to be exposed to the aqueous environment, be present on the surface of the protein, and thus available for immune recognition, such as by antibodies.

Average Flexibility (FIG. 8) and Beta-turn (FIG. 9) profiles determine stretches of amino acids (i.e., values greater than 0.5 on the Beta-turn profile and the Average Flexibility profile) that are not constrained in secondary structures such as beta sheets and alpha helices. Such regions are also more likely to be exposed on the protein and thus accessible to immune recognition, such as by antibodies.

Antigenic sequences of the 184P1E2 protein and of the variant proteins indicated, e.g., by the profiles set forth in FIG. 5, FIG. 6, FIG. 7, FIG. 8, and/or FIG. 9 are used to prepare immunogens, either peptides or nucleic acids that encode them, to generate therapeutic and diagnostic anti-184P1E2 antibodies. The immunogen can be any 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 30, 35, 40, 45, 50 or more than 50 contiguous amino acids, or the corresponding nucleic acids that encode them, from the 184P1E2 protein variants listed in FIGS. 2 and 3. In particular, peptide immunogens of the invention can comprise, a peptide region of at least 5 amino acids of FIGS. 2 and 3 in any whole number increment that includes an amino acid position having a value greater than 0.5 in the Hydrophilicity profile of FIG. 5; a peptide region of at least 5 amino acids of FIGS. 2 and 3 in any whole number increment that includes an amino acid position having a value less than 0.5 in the Hydropathicity profile of FIG. 6 ; a peptide region of at least 5 amino acids of FIGS. 2 and 3 in any whole number increment that includes an amino acid position having a value greater than 0.5 in the Percent Accessible Residues profile of FIG. 7 ; a peptide region of at least 5 amino acids of FIGS. 2 and 3 in any whole number increment that includes an amino acid position having a value greater than 0.5 in the Average Flexibility profile on FIG. 8; and, a peptide region of at least 5 amino acids of FIGS. 2 and 3 in any whole number increment that includes an amino acid position having a value greater than 0.5 in the Beta-turn profile of FIG. 9 . Peptide immunogens of the invention can also comprise nucleic acids that encode any of the forgoing.

All immunogens of the invention, peptide or nucleic acid, can be embodied in human unit dose form, or comprised by a composition that includes a pharmaceutical excipient compatible with human physiology.

The secondary structure of 184P1E2 variant 1, namely the predicted presence and location of alpha helices, extended strands, and random coils, is predicted from the primary amino acid sequence using the HNN—Hierarchical Neural Network method (Guermeur, 1997, accessed from the ExPasy molecular biology server. The analysis indicates that 184P1E2 variant 1 is composed of 25.30% alpha helix, 22.59% extended strand, and 52.11% random coil (FIG. 13).

Analysis for the potential presence of transmembrane domains in 184P1E2 variant 1 was carried out using a variety of transmembrane prediction algorithms accessed from the ExPasy molecular biology server. The programs do not predict the presence of transmembrane domains in 184P1E2, suggesting that it is a soluble protein.

Example 10 Generation of 184P1E2 Polyclonal Antibodies

Polyclonal antibodies can be raised in a mammal, for example, by one or more injections of an immunizing agent and, if desired, an adjuvant. Typically, the immunizing agent and/or adjuvant will be injected in the mammal by multiple subcutaneous or intraperitoneal injections. In addition to immunizing with the full length 184P1E2 protein, computer algorithms are employed in design of immunogens that, based on amino acid sequence analysis contain characteristics of being antigenic and available for recognition by the immune system of the immunized host (see the Example entitled “Antigenicity Profiles”). Such regions would be predicted to be hydrophilic, flexible, in beta-turn conformations, and be exposed on the surface of the protein (see, e.g., FIG. 5, FIG. 6, FIG. 7, FIG. 8, or FIG. 9 for amino acid profiles that indicate such regions of 184P1E2 and variants).

For example, 184P1E2 recombinant bacterial fusion proteins or peptides containing hydrophilic, flexible, beta-turn regions of 184P1E2 variant proteins are used as antigens to generate polyclonal antibodies in New Zealand White rabbits. For example, such regions include, but are not limited to, amino acids 53-73, amino acids, amino acids 117-136, amino acids 217-251, and 366-446 of 184P1E2 variant 1. It is useful to conjugate the immunizing agent to a protein known to be immunogenic in the mammal being immunized. Examples of such immunogenic proteins include, but are not limited to, keyhole limpet hemocyanin (KLH), serum albumin, bovine thyroglobulin, and soybean trypsin inhibitor. In one embodiment, a peptide encoding amino acids 53-73 of 184P1E2 variant 1 is conjugated to KLH and used to immunize the rabbit. Alternatively the immunizing agent may include all or portions of the 184P1E2 variant proteins, analogs or fusion proteins thereof. For example, the 184P1E2 variant 1 amino acid sequence can be fused using recombinant DNA techniques to any one of a variety of fusion protein partners that are well known in the art, such as glutathione-S-transferase (GST) and HIS tagged fusion proteins. Such fusion proteins are purified from induced bacteria using the appropriate affinity matrix.

In one embodiment, a GST-fusion protein encoding amino acids 1-251, encompassing several predicted antigenic regions, is produced and purified and used as immunogen. Other recombinant bacterial fusion proteins that may be employed include maltose binding protein, LacZ, thioredoxin, NusA, or an immunoglobulin constant region (see the section entitled “Production of 184P1E2 in Prokaryotic Systems” and Current Protocols In Molecular Biology, Volume 2, Unit 16, Frederick M. Ausubul et al. eds., 1995; Linsley, P. S., Brady, W., Urnes, M., Grosmaire, L., Damle, N., and Ledbetter, L. (1991) J. Exp. Med. 174, 561-566).

In addition to bacterial derived fusion proteins, mammalian expressed protein antigens are also used. These antigens are expressed from mammalian expression vectors such as the Tag5 and Fc-fusion vectors (see the Example entitled “Production of Recombinant 184P1E2 in Eukaryotic Systems”), and retain post-translational modifications such as glycosylations found in native protein. In one embodiment, the full length sequence of variant 1, amino acids 1-664, is cloned into the Tag5 mammalian secretion vector. The recombinant protein is purified by metal chelate chromatography from tissue culture supernatants of 293T cells stably expressing the recombinant vector. The purified Tag5 184P1E2 protein is then used as immunogen.

During the immunization protocol, it is useful to mix or emulsify the antigen in adjuvants that enhance the immune response of the host animal. Examples of adjuvants include, but are not limited to, complete Freund's adjuvant (CFA) and MPL-TDM adjuvant (monophosphoryl Lipid A, synthetic trehalose dicorynomycolate).

In a typical protocol, rabbits are initially immunized subcutaneously with up to 200 μg, typically 100-200 μg, of fusion protein or peptide conjugated to KLH mixed in complete Freund's adjuvant (CFA). Rabbits are then injected subcutaneously every two weeks with up to 200 μg, typically 100-200 μg, of the immunogen in incomplete Freund's adjuvant (IFA). Test bleeds are taken approximately 7-10 days following each immunization and used to monitor the titer of the antiserum by ELISA.

To test reactivity and specificity of immune serum, such as the rabbit serum derived from immunization with a KLH-conjugated peptide encoding amino acids 53-73 of variant 1, the full-length 184P1E2 variant 1 cDNA is cloned into pcDNA 3.1 myc-his expression vector (Invitrogen, see the Example entitled “Production of Recombinant 184P1E2 in Eukaryotic Systems”). After transfection of the constructs into 293T cells, cell lysates are probed with the anti-184P1E2 serum and with anti-His antibody (Santa Cruz Biotechnologies, Santa Cruz, Calif.) to determine specific reactivity to denatured 184P1E2 protein using the Western blot technique. The immune serum is then tested by the Western blot technique against 293T-184P1E2 cells. In addition, the immune serum is tested by fluorescence microscopy, flow cytometry and immunoprecipitation against 293T and other recombinant 184P1E2-expressing cells to determine specific recognition of native protein. Western blot, immunoprecipitation, fluorescent microscopy, and flow cytometric techniques using cells that endogenously express 184P1E2 are also carried out to test reactivity and specificity.

Anti-serum from rabbits immunized with 184P1E2 variant fusion proteins, such as GST and MBP fusion proteins, are purified by depletion of antibodies reactive to the fusion partner sequence by passage over an affinity column containing the fusion partner either alone or in the context of an irrelevant fusion protein. For example, antiserum derived from a GST-184P1E2 fusion protein encoding amino acids 1-251 is first purified by passage over a column of GST protein covalently coupled to AffiGel matrix (BioRad, Hercules, Calif.). The antiserum is then affinity purified by passage over a column composed of a MBP-fusion protein also encoding amino acids 1-251 covalently coupled to Affigel matrix. The serum is then further purified by protein G affinity chromatography to isolate the IgG fraction. Sera from other His-tagged antigens and peptide immunized rabbits as well as fusion partner depleted sera are affinity purified by passage over a column matrix composed of the original protein immunogen or free peptide.

Example 11 Generation of 184P1E2 Monoclonal Antibodies (mAbs)

In one embodiment, therapeutic mAbs to 184P1E2 variants comprise those that react with epitopes specific for each variant protein or specific to sequences in common between the variants that would disrupt or modulate the biological function of the 184P1E2 variants, for example those that would disrupt the interaction with ligands and substrates or disrupt its catalytic activity. Immunogens for generation of such mAbs include those designed to encode or contain the entire 184P1E2 protein variant sequence, regions of the 184P1E2 protein variants predicted to be antigenic from computer analysis of the amino acid sequence (see, e.g., FIG. 5, FIG. 6, FIG. 7, FIG. 8, or FIG. 9, and the Example entitled “Antigenicity Profiles”). Immunogens include peptides, recombinant bacterial proteins, and mammalian expressed Tag 5 proteins and human and murine IgG FC fusion proteins. In addition, cells engineered to express high levels of a respective 184P1E2 variant, such as 293T-184P1E2 variant 1 or 300.19-184P1E2 variant Imurine Pre-B cells, are used to immunize mice.

To generate mAbs to a 184P1E2 variant, mice are first immunized intraperitoneally (IP) with, typically, 10-50 μg of protein immunogen or 10⁷ 184P1E2-expressing cells mixed in complete Freund's adjuvant. Mice are then subsequently immunized IP every 2-4 weeks with, typically, 10-50 μg of protein immunogen or 10⁷ cells mixed in incomplete Freund's adjuvant. Alternatively, MPL-TDM adjuvant is used in immunizations. In addition to the above protein and cell-based immunization strategies, a DNA-based immunization protocol is employed in which a mammalian expression vector encoding a 184P1E2 variant sequence is used to immunize mice by direct injection of the plasmid DNA. For example, the full length variant 1 sequence, encoding amino acids 1-664, is cloned into the Tag5 mammalian secretion vector and the recombinant vector is used as immunogen. In another example the same amino acids are cloned into an Fc-fusion secretion vector in which the 184P1E2 variant 1 sequence is fused at the amino-terminus to an IgK leader sequence and at the carboxyl-terminus to the coding sequence of the human or murine IgG Fc region. This recombinant vector is then used as immunogen. The plasmid immunization protocols are used in combination with purified proteins expressed from the same vector and with cells expressing the respective 184P1E2 variant.

During the immunization protocol, test bleeds are taken 7-10 days following an injection to monitor titer and specificity of the immune response. Once appropriate reactivity and specificity is obtained as determined by ELISA, Western blotting, immunoprecipitation, fluorescence microscopy, and flow cytometric analyses, fusion and hybridoma generation is then carried out with established procedures well known in the art (see, e.g., Harlow and Lane, 1988).

In one embodiment for generating 184P1E2 monoclonal antibodies, a Tag5-184P1E2 variant 1 antigen encoding amino acids 1-664, is expressed and purified from stably transfected 293T cells. Balb C mice are initially immunized intraperitoneally with 25 μg of the Tag5-184P1E2 variant 1 protein mixed in complete Freund's adjuvant. Mice are subsequently immunized every two weeks with 25 μg of the antigen mixed in incomplete Freund's adjuvant for a total of three immunizations. ELISA using the Tag5 antigen determines the titer of serum from immunized mice. Reactivity and specificity of serum to full length 184P1E2 variant protein is monitored by Western blotting, immunoprecipitation and flow cytometry using 293T cells transfected with an expression vector encoding the 184P1E2 variant 1 cDNA (see e.g., the Example entitled “Production of Recombinant 184P1E2 in Eukaryotic Systems”). Other recombinant 184P1E2 variant 1-expressing cells or cells endogenously expressing 184P1E2 variant 1 are also used. Mice showing the strongest reactivity are rested and given a final injection of Tag5 antigen in PBS and then sacrificed four days later. The spleens of the sacrificed mice are harvested and fused to SPO/2 myeloma cells using standard procedures (Harlow and Lane, 1988). Supernatants from HAT selected growth wells are screened by ELISA, Western blot, immunoprecipitation, fluorescent microscopy, and flow cytometry to identify 184P1E2 specific antibody-producing clones.

The binding affinity of a 184P1E2 monoclonal antibody is determined using standard technologies. Affinity measurements quantify the strength of antibody to epitope binding and are used to help define which 184P1E2 monoclonal antibodies preferred for diagnostic or therapeutic use, as appreciated by one of skill in the art. The BIAcore system (Uppsala, Sweden) is a preferred method for determining binding affinity. The BIAcore system uses surface plasmon resonance (SPR, Welford K. 1991, Opt. Quant. Elect. 23:1; Morton and Myszka, 1998, Methods in Enzymology 295: 268) to monitor biomolecular interactions in real time. BIAcore analysis conveniently generates association rate constants, dissociation rate constants, equilibrium dissociation constants, and affinity constants.

Example 12 HLA Class I and Class II Binding Assays

HLA class I and class II binding assays using purified HLA molecules are performed in accordance with disclosed protocols (e.g., PCT publications WO 94/20127 and WO 94/03205; Sidney et al., Current Protocols in Immunology 18.3.1 (1998); Sidney, et al., J. Immunol. 154:247 (1995); Sette, et al., Mol. Immunol. 31:813 (1994)). Briefly, purified MHC molecules (5 to 500 nM) are incubated with various unlabeled peptide inhibitors and 1-10 nM ¹²⁵I-radiolabeled probe peptides as described. Following incubation, MHC-peptide complexes are separated from free peptide by gel filtration and the fraction of peptide bound is determined. Typically, in preliminary experiments, each MHC preparation is titered in the presence of fixed amounts of radiolabeled peptides to determine the concentration of HLA molecules necessary to bind 10-20% of the total radioactivity. All subsequent inhibition and direct binding assays are performed using these HLA concentrations.

Since under these conditions [label]<[HLA] and IC₅₀≧[HLA], the measured IC₅₀ values are reasonable approximations of the true K_(D) values. Peptide inhibitors are typically tested at concentrations ranging from 120 μg/ml to 1.2 ng/ml, and are tested in two to four completely independent experiments. To allow comparison of the data obtained in different experiments, a relative binding figure is calculated for each peptide by dividing the IC₅₀ of a positive control for inhibition by the IC₅₀ for each tested peptide (typically unlabeled versions of the radiolabeled probe peptide). For database purposes, and inter-experiment comparisons, relative binding values are compiled. These values can subsequently be converted back into IC₅₀ nM values by dividing the IC₅₀ nM of the positive controls for inhibition by the relative binding of the peptide of interest. This method of data compilation is accurate and consistent for comparing peptides that have been tested on different days, or with different lots of purified MHC.

Binding assays as outlined above may be used to analyze HLA supermotif and/or HLA motif-bearing peptides (see Table IV).

Example 13 Identification of HLA Supermotif- and Motif-Bearing CTL Candidate Epitopes

HLA vaccine compositions of the invention can include multiple epitopes. The multiple epitopes can comprise multiple HLA supermotifs or motifs to achieve broad population coverage. This example illustrates the identification and confirmation of supermotif- and motif-bearing epitopes for the inclusion in such a vaccine composition. Calculation of population coverage is performed using the strategy described below.

Computer Searches and Algorithms for Identification of Supermotif and/or Motif-Bearing Epitopes

The searches performed to identify the motif-bearing peptide sequences in the Example entitled “Antigenicity Profiles” and Tables V-XVIII and XXII-LI employ the protein sequence data from the gene product of 184P1E2 set forth in FIGS. 2 and 3, the specific peptides used to generate the tables are listed in table LII.

Computer searches for epitopes bearing HLA Class I or Class II supermotifs or motifs are performed as follows. All translated 184P1E2 protein sequences are analyzed using a text string search software program to identify potential peptide sequences containing appropriate HLA binding motifs; such programs are readily produced in accordance with information in the art in view of known motif/supermotif disclosures. Furthermore, such calculations can be made mentally.

Identified A2-, A3-, and DR-supermotif sequences are scored using polynomial algorithms to predict their capacity to bind to specific HLA-Class I or Class II molecules. These polynomial algorithms account for the impact of different amino acids at different positions, and are essentially based on the premise that the overall affinity (or ΔG) of peptide-HLA molecule interactions can be approximated as a linear polynomial function of the type: “ΔG”=a _(1i) ×a _(2i) ×a _(3i) . . . ×a _(ni)

where a_(ji) is a coefficient which represents the effect of the presence of a given amino acid (j) at a given position (i) along the sequence of a peptide of n amino acids. The crucial assumption of this method is that the effects at each position are essentially independent of each other (i.e., independent binding of individual side-chains). When residue j occurs at position i in the peptide, it is assumed to contribute a constant amount j_(i) to the free energy of binding of the peptide irrespective of the sequence of the rest of the peptide.

The method of derivation of specific algorithm coefficients has been described in Gulukota et al., J. Mol. Biol. 267:1258-126, 1997; (see also Sidney et al., Human Immunol. 45:79-93, 1996; and Southwood et al., J. Immunol. 160:3363-3373, 1998). Briefly, for all i positions, anchor and non-anchor alike, the geometric mean of the average relative binding (ARB) of all peptides carrying j is calculated relative to the remainder of the group, and used as the estimate of j_(i). For Class II peptides, if multiple alignments are possible, only the highest scoring alignment is utilized, following an iterative procedure. To calculate an algorithm score of a given peptide in a test set, the ARB values corresponding to the sequence of the peptide are multiplied. If this product exceeds a chosen threshold, the peptide is predicted to bind. Appropriate thresholds are chosen as a function of the degree of stringency of prediction desired.

Selection of HLA-A2 Supertype Cross-Reactive Peptides

Protein sequences from 184P1E2 are scanned utilizing motif identification software, to identify 8-, 9-10- and 11-mer sequences containing the HLA-A2-supermotif main anchor specificity. Typically, these sequences are then scored using the protocol described above and the peptides corresponding to the positive-scoring sequences are synthesized and tested for their capacity to bind purified HLA-A*0201 molecules in vitro (HLA-A*0201 is considered a prototype A2 supertype molecule).

These peptides are then tested for the capacity to bind to additional A2-supertype molecules (A*0202, A*0203, A*0206, and A*6802). Peptides that bind to at least three of the five A2-supertype alleles tested are typically deemed A2-supertype cross-reactive binders. Preferred peptides bind at an affinity equal to or less than 500 nM to three or more HLA-A2 supertype molecules.

Selection of HLA-A3 Supermotif-Bearing Epitopes

The 184P1E2 protein sequence(s) scanned above is also examined for the presence of peptides with the HLA-A3-supermotif primary anchors. Peptides corresponding to the HLA A3 supermotif-bearing sequences are then synthesized and tested for binding to HLA-A*0301 and HLA-A*1101 molecules, the molecules encoded by the two most prevalent A3-supertype alleles. The peptides that bind at least one of the two alleles with binding affinities of ≦500 nM, often ≦200 nM, are then tested for binding cross-reactivity to the other common A3-supertype alleles (e.g., A*3101, A*3301, and A*6801) to identify those that can bind at least three of the five HLA-A3-supertype molecules tested.

Selection of HLA-B7 Supermotif Bearing Epitopes

The 184P1E2 protein(s) scanned above is also analyzed for the presence of 8-, 9-10-, or 1 1-mer peptides with the HLA-B7-supermotif. Corresponding peptides are synthesized and tested for binding to HLA-B*0702, the molecule encoded by the most common B7-supertype allele (i.e., the prototype B7 supertype allele). Peptides binding B*0702 with IC₅₀ of ≦500 nM are identified using standard methods. These peptides are then tested for binding to other common B7-supertype molecules (e.g., B*3501, B*5101, B*5301, and B*5401). Peptides capable of binding to three or more of the five B7-supertype alleles tested are thereby identified.

Selection of A1 and A24 Motif-Bearing Epitopes

To further increase population coverage, HLA-A1 and -A24 epitopes can also be incorporated into vaccine compositions. An analysis of the 184P1E2 protein can also be performed to identify HLA-A1- and A24-motif-containing sequences.

High affinity and/or cross-reactive binding epitopes that bear other motif and/or supermotifs are identified using analogous methodology.

Example 14 Confirmation of Immunogenicity

Cross-reactive candidate CTL A2-supermotif-bearing peptides that are identified as described herein are selected to confirm in vitro immunogenicity. Confirmation is performed using the following methodology:

Target Cell Lines for Cellular Screening:

The 0.221A2.1 cell line, produced by transferring the HLA-A2.1 gene into the HLA-A, -B, -C null mutant human B-lymphoblastoid cell line 721.221, is used as the peptide-loaded target to measure activity of HLA-A2.1-restricted CTL. This cell line is grown in RPMI-1640 medium supplemented with antibiotics, sodium pyruvate, nonessential amino acids and 10% (v/v) heat inactivated FCS. Cells that express an antigen of interest, or transfectants comprising the gene encoding the antigen of interest, can be used as target cells to confirm the ability of peptide-specific CTLs to recognize endogenous antigen.

Primary CTL Induction Cultures:

Generation of Dendritic Cells (DC): PBMCs are thawed in RPMI with 30 μg/ml DNAse, washed twice and resuspended in complete medium (RPMI-1640 plus 5% AB human serum, non-essential amino acids, sodium pyruvate, L-glutamine and penicillin/streptomycin). The monocytes are purified by plating 10×10⁶ PBMC/well in a 6-well plate. After 2 hours at 37° C., the non-adherent cells are removed by gently shaking the plates and aspirating the supernatants. The wells are washed a total of three times with 3 ml RPMI to remove most of the non-adherent and loosely adherent cells. Three ml of complete medium containing 50 ng/ml of GM-CSF and 1,000 U/ml of IL-4 are then added to each well. TNFα is added to the DCs on day 6 at 75 ng/ml and the cells are used for CTL induction cultures on day 7.

Induction of CTL with DC and Peptide: CD8+ T-cells are isolated by positive selection with Dynal immunomagnetic beads (Dynabeads® M-450) and the Detacha-Bead® reagent. Typically about 200-250×10⁶ PBMC are processed to obtain 24×10⁶ CD8⁺ T-cells (enough for a 48-well plate culture). Briefly, the PBMCs are thawed in RPMI with 30 μg/ml DNAse, washed once with PBS containing 1% human AB serum and resuspended in PBS/1% AB serum at a concentration of 20×10⁶ cells/ml. The magnetic beads are washed 3 times with PBS/AB serum, added to the cells (140 μl beads/20×10⁶ cells) and incubated for 1 hour at 4° C. with continuous mixing. The beads and cells are washed 4× with PBS/AB serum to remove the nonadherent cells and resuspended at 100×10⁶ cells/ml (based on the original cell number) in PBS/AB serum containing 100 μl/ml Detacha-Bead® reagent and 30 μg/ml DNAse. The mixture is incubated for 1 hour at room temperature with continuous mixing. The beads are washed again with PBS/AB/DNAse to collect the CD8+ T-cells. The DC are collected and centrifuged at 1300 rpm for 5-7 minutes, washed once with PBS with 1% BSA, counted and pulsed with 40 μg/ml of peptide at a cell concentration of 1-2×10⁶/ml in the presence of 3 μg/ml 12-microglobulin for 4 hours at 20° C. The DC are then irradiated (4,200 rads), washed 1 time with medium and counted again.

Setting up induction cultures: 0.25 ml cytokine-generated DC (at 1×10⁵ cells/ml) are co-cultured with 0.25 ml of CD8+ T-cells (at 2×10⁶ cell/ml) in each well of a 48-well plate in the presence of 10 ng/ml of IL-7. Recombinant human IL-10 is added the next day at a final concentration of 10 ng/ml and rhuman IL-2 is added 48 hours later at 10 IU/ml.

Restimulation of the induction cultures with peptide-pulsed adherent cells: Seven and fourteen days after the primary induction, the cells are restimulated with peptide-pulsed adherent cells. The PBMCs are thawed and washed twice with RPMI and DNAse. The cells are resuspended at 5×10⁶ cells/ml and irradiated at ˜4200 rads. The PBMCs are plated at 2×10⁶ in 0.5 ml complete medium per well and incubated for 2 hours at 37° C. The plates are washed twice with RPMI by tapping the plate gently to remove the nonadherent cells and the adherent cells pulsed with 10 μg/ml of peptide in the presence of 3 μg/ml β₂ microglobulin in 0.25 ml RPMI/5% AB per well for 2 hours at 37° C. Peptide solution from each well is aspirated and the wells are washed once with RPMI. Most of the media is aspirated from the induction cultures (CD8+ cells) and brought to 0.5 ml with fresh media. The cells are then transferred to the wells containing the peptide-pulsed adherent cells. Twenty four hours later recombinant human IL-10 is added at a final concentration of 10 ng/ml and recombinant human IL2 is added the next day and again 2-3 days later at 50IU/ml (Tsai et al., Critical Reviews in Immunology 18(1-2):65-75, 1998). Seven days later, the cultures are assayed for CTL activity in a ⁵¹Cr release assay. In some experiments the cultures are assayed for peptide-specific recognition in the in situ IFNγ ELISA at the time of the second restimulation followed by assay of endogenous recognition 7 days later. After expansion, activity is measured in both assays for a side-by-side comparison.

Measurement of CTL Lytic Activity by ⁵¹Cr Release.

Seven days after the second restimulation, cytotoxicity is determined in a standard (5 hr) ⁵¹Cr release assay by assaying individual wells at a single E:T. Peptide-pulsed targets are prepared by incubating the cells with 10 μg/ml peptide overnight at 37° C.

Adherent target cells are removed from culture flasks with trypsin-EDTA. Target cells are labeled with 200 μCi of ⁵¹Cr sodium chromate (Dupont, Wilmington, Del.) for 1 hour at 37° C. Labeled target cells are resuspended at 10⁶ per ml and diluted 1:10 with K562 cells at a concentration of 3.3×10⁶/ml (an NK-sensitive erythroblastoma cell line used to reduce non-specific lysis). Target cells (100 μl) and effectors (100 μl) are plated in 96 well round-bottom plates and incubated for 5 hours at 37° C. At that time, 100 μl of supernatant are collected from each well and percent lysis is determined according to the formula: [(cpm of the test sample−cpm of the spontaneous ⁵¹Cr release sample)/(cpm of the maximal ⁵¹Cr release sample−cpm of the spontaneous ⁵¹Cr release sample)]×100.

Maximum and spontaneous release are determined by incubating the labeled targets with 1% Triton X-100 and media alone, respectively. A positive culture is defined as one in which the specific lysis (sample-background) is 10% or higher in the case of individual wells and is 15% or more at the two highest E:T ratios when expanded cultures are assayed.

In situ Measurement of Human IFNγ Production as an Indicator of Peptide-Specific and Endogenous Recognition

Immulon 2 plates are coated with mouse anti-human IFNγ monoclonal antibody (4 μg/ml 0.1M NaHCO₃, pH8.2) overnight at 4° C. The plates are washed with Ca²⁺, Mg²⁺-free PBS/0.05% Tween 20 and blocked with PBS/10% FCS for two hours, after which the CTLs (100 μl/well) and targets (100 μl/well) are added to each well, leaving empty wells for the standards and blanks (which received media only). The target cells, either peptide-pulsed or endogenous targets, are used at a concentration of 1×10⁶ cells/ml. The plates are incubated for 48 hours at 37° C. with 5% CO₂.

Recombinant human IFN-gamma is added to the standard wells starting at 400 pg or 1200 pg/100 microliter/well and the plate incubated for two hours at 37° C. The plates are washed and 100 μl of biotinylated mouse anti-human IFN-gamma monoclonal antibody (2 microgram/ml in PBS/3% FCS/0.05% Tween 20) are added and incubated for 2 hours at room temperature. After washing again, 100 microliter HRP-streptavidin (1:4000) are added and the plates incubated for one hour at room temperature. The plates are then washed 6× with wash buffer, 100 microliter/well developing solution (TMB 1:1) are added, and the plates allowed to develop for 5-15 minutes. The reaction is stopped with 50 microliter/well 1M H₃PO₄ and read at OD450. A culture is considered positive if it measured at least 50 pg of IFN-gamma/well above background and is twice the background level of expression.

CTL Expansion.

Those cultures that demonstrate specific lytic activity against peptide-pulsed targets and/or tumor targets are expanded over a two week period with anti-CD3. Briefly, 5×10⁴ CD8+ cells are added to a T25 flask containing the following: 1×10⁶ irradiated (4,200 rad) PBMC (autologous or allogeneic) per ml, 2×10⁵ irradiated (8,000 rad) EBV-transformed cells per ml, and OKT3 (anti-CD3) at 30 ng per ml in RPMI-1640 containing 10% (v/v) human AB serum, non-essential amino acids, sodium pyruvate, 25 μM 2-mercaptoethanol, L-glutamine and penicillin/streptomycin. Recombinant human IL2 is added 24 hours later at a final concentration of 2001 U/ml and every three days thereafter with fresh media at 50IU/ml. The cells are split if the cell concentration exceeds 1×10⁶/ml and the cultures are assayed between days 13 and 15 at E:T ratios of 30, 10, 3 and 1:1 in the ⁵¹Cr release assay or at 1×10⁶/ml in the in situ IFNγ assay using the same targets as before the expansion.

Cultures are expanded in the absence of anti-CD3⁺ as follows. Those cultures that demonstrate specific lytic activity against peptide and endogenous targets are selected and 5×10⁴ CD8⁺ cells are added to a T25 flask containing the following: 1×10⁶ autologous PBMC per ml which have been peptide-pulsed with 10 μg/ml peptide for two hours at 37° C. and irradiated (4,200 rad); 2×10⁵ irradiated (8,000 rad) EBV-transformed cells per ml RPMI-1640 containing 10% (v/v) human AB serum, non-essential AA, sodium pyruvate, 25 mM 2-ME, L-glutamine and gentamicin.

Immunogenicity of A2 Supermotif-Bearing Peptides

A2-supermotif cross-reactive binding peptides are tested in the cellular assay for the ability to induce peptide-specific CTL in normal individuals. In this analysis, a peptide is typically considered to be an epitope if it induces peptide-specific CTLs in at least individuals, and preferably, also recognizes the endogenously expressed peptide.

Immunogenicity can also be confirmed using PBMCs isolated from patients bearing a tumor that expresses 184P1E2. Briefly, PBMCs are isolated from patients, re-stimulated with peptide-pulsed monocytes and assayed for the ability to recognize peptide-pulsed target cells as well as transfected cells endogenously expressing the antigen.

Evaluation of A*03/A11 Immunogenicity

HLA-A3 supermotif-bearing cross-reactive binding peptides are also evaluated for immunogenicity using methodology analogous for that used to evaluate the immunogenicity of the HLA-A2 supermotif peptides.

Evaluation of B7 Immunogenicity

Immunogenicity screening of the B7-supertype cross-reactive binding peptides identified as set forth herein are confirmed in a manner analogous to the confirmation of A2- and A3-supermotif-bearing peptides.

Peptides bearing other supermotifs/motifs, e.g., HLA-A1, HLA-A24 etc. are also confirmed using similar methodology

Example 15 Implementation of the Extended Supermotif to Improve the Binding Capacity of Native Epitopes by Creating Analogs

HLA motifs and supermotifs (comprising primary and/or secondary residues) are useful in the identification and preparation of highly cross-reactive native peptides, as demonstrated herein. Moreover, the definition of HLA motifs and supermotifs also allows one to engineer highly cross-reactive epitopes by identifying residues within a native peptide sequence which can be analoged to confer upon the peptide certain characteristics, e.g. greater cross-reactivity within the group of HLA molecules that comprise a supertype, and/or greater binding affinity for some or all of those HLA molecules. Examples of analoging peptides to exhibit modulated binding affinity are set forth in this example.

Analoging at Primary Anchor Residues

Peptide engineering strategies are implemented to further increase the cross-reactivity of the epitopes. For example, the main anchors of A2-supermotif-bearing peptides are altered, for example, to introduce a preferred L, I, V, or M at position 2, and I or V at the C-terminus.

To analyze the cross-reactivity of the analog peptides, each engineered analog is initially tested for binding to the prototype A2 supertype allele A*0201, then, if A*0201 binding capacity is maintained, for A2-supertype cross-reactivity.

Alternatively, a peptide is confirmed as binding one or all supertype members and then analoged to modulate binding affinity to any one (or more) of the supertype members to add population coverage.

The selection of analogs for immunogenicity in a cellular screening analysis is typically further restricted by the capacity of the parent wild type (WT) peptide to bind at least weakly, i.e., bind at an IC₅₀₀f 5000 nM or less, to three of more A2 supertype alleles. The rationale for this requirement is that the WT peptides must be present endogenously in sufficient quantity to be biologically relevant. Analoged peptides have been shown to have increased immunogenicity and cross-reactivity by T cells specific for the parent epitope (see, e.g., Parkhurst et al., J. Immunol. 157:2539, 1996; and Pogue et al., Proc. Natl. Acad. Sci. USA 92:8166, 1995).

In the cellular screening of these peptide analogs, it is important to confirm that analog-specific CTLs are also able to recognize the wild-type peptide and, when possible, target cells that endogenously express the epitope.

Analoging of HLA-A3 and B7-Supermotif-Bearing Peptides

Analogs of HLA-A3 supermotif-bearing epitopes are generated using strategies similar to those employed in analoging HLA-A2 supermotif-bearing peptides. For example, peptides binding to 3/5 of the A3-supertype molecules are engineered at primary anchor residues to possess a preferred residue (V, S, M, or A) at position 2.

The analog peptides are then tested for the ability to bind A*03 and A*11 (prototype A3 supertype alleles). Those peptides that demonstrate ≦500 nM binding capacity are then confirmed as having A3-supertype cross-reactivity.

Similarly to the A2- and A3-motif bearing peptides, peptides binding 3 or more B7-supertype alleles can be improved, where possible, to achieve increased cross-reactive binding or greater binding affinity or binding half life. B7 supermotif-bearing peptides are, for example, engineered to possess a preferred residue (V, I, L, or F) at the C-terminal primary anchor position, as demonstrated by Sidney et al. (J. Immunol. 157:3480-3490, 1996).

Analoging at primary anchor residues of other motif and/or supermotif-bearing epitopes is performed in a like manner.

The analog peptides are then be confirmed for immunogenicity, typically in a cellular screening assay. Again, it is generally important to demonstrate that analog-specific CTLs are also able to recognize the wild-type peptide and, when possible, targets that endogenously express the epitope.

Analoging at Secondary Anchor Residues

Moreover, HLA supermotifs are of value in engineering highly cross-reactive peptides and/or peptides that bind HLA molecules with increased affinity by identifying particular residues at secondary anchor positions that are associated with such properties. For example, the binding capacity of a B7 supermotif-bearing peptide with an F residue at position 1 is analyzed. The peptide is then analoged to, for example, substitute L for F at position 1. The analoged peptide is evaluated for increased binding affinity, binding half life and/or increased cross-reactivity. Such a procedure identifies analoged peptides with enhanced properties.

Engineered analogs with sufficiently improved binding capacity or cross-reactivity can also be tested for immunogenicity in HLA-B7-transgenic mice, following for example, IFA immunization or lipopeptide immunization. Analoged peptides are additionally tested for the ability to stimulate a recall response using PBMC from patients with 184P1E2-expressing tumors.

Other Analoging Strategies

Another form of peptide analoging, unrelated to anchor positions, involves the substitution of a cysteine with α-amino butyric acid. Due to its chemical nature, cysteine has the propensity to form disulfide bridges and sufficiently alter the peptide structurally so as to reduce binding capacity. Substitution of α-amino butyric acid for cysteine not only alleviates this problem, but has been shown to improve binding and crossbinding capabilities in some instances (see, e.g., the review by Sette et al., In: Persistent Viral Infections, Eds. R. Ahmed and I. Chen, John Wiley & Sons, England, 1999).

Thus, by the use of single amino acid substitutions, the binding properties and/or cross-reactivity of peptide ligands for HLA supertype molecules can be modulated.

Example 16 Identification and Confirmation of 184P1E2-Derived Sequences with HLA-DR Binding Motifs

Peptide epitopes bearing an HLA class II supermotif or motif are identified and confirmed as outlined below using methodology similar to that described for HLA Class I peptides.

Selection of HLA-DR-Supermotif-Bearing Epitopes.

To identify 184P1E2-derived, HLA class II HTL epitopes, a 184P1E2 antigen is analyzed for the presence of sequences bearing an HLA-DR-motif or supermotif. Specifically, 15-mer sequences are selected comprising a DR-supermotif, comprising a 9-mer core, and three-residue N- and C-terminal flanking regions (15 amino acids total).

Protocols for predicting peptide binding to DR molecules have been developed (Southwood et al., J. Immunol. 160:3363-3373, 1998). These protocols, specific for individual DR molecules, allow the scoring, and ranking, of 9-mer core regions. Each protocol not only scores peptide sequences for the presence of DR-supermotif primary anchors (i.e., at position 1 and position 6) within a 9-mer core, but additionally evaluates sequences for the presence of secondary anchors. Using allele-specific selection tables (see, e.g., Southwood et al., ibid.), it has been found that these protocols efficiently select peptide sequences with a high probability of binding a particular DR molecule. Additionally, it has been found that performing these protocols in tandem, specifically those for DR1, DR4w4, and DR7, can efficiently select DR cross-reactive peptides.

The 184P1E2-derived peptides identified above are tested for their binding capacity for various common HLA-DR molecules. All peptides are initially tested for binding to the DR molecules in the primary panel: DR1, DR4w4, and DR7. Peptides binding at least two of these three DR molecules are then tested for binding to DR2w2 β1, DR2w2 β2, DR6w19, and DR9 molecules in secondary assays. Finally, peptides binding at least two of the four secondary panel DR molecules, and thus cumulatively at least four of seven different DR molecules, are screened for binding to DR4w15, DR5w11, and DR8w2 molecules in tertiary assays. Peptides binding at least seven of the ten DR molecules comprising the primary, secondary, and tertiary screening assays are considered cross-reactive DR binders. 184P1E2-derived peptides found to bind common HLA-DR alleles are of particular interest.

Selection of DR3 Motif Peptides

Because HLA-DR3 is an allele that is prevalent in Caucasian, Black, and Hispanic populations, DR3 binding capacity is a relevant criterion in the selection of HTL epitopes. Thus, peptides shown to be candidates may also be assayed for their DR3 binding capacity. However, in view of the binding specificity of the DR3 motif, peptides binding only to DR3 can also be considered as candidates for inclusion in a vaccine formulation.

To efficiently identify peptides that bind DR3, target 184P1E2 antigens are analyzed for sequences carrying one of the two DR3-specific binding motifs reported by Geluk et al. (J. Immunol. 152:5742-5748, 1994). The corresponding peptides are then synthesized and confirmed as having the ability to bind DR3 with an affinity of 1 μM or better, i.e., less than 1 μM. Peptides are found that meet this binding criterion and qualify as HLA class II high affinity binders.

DR3 binding epitopes identified in this manner are included in vaccine compositions with DR supermotif-bearing peptide epitopes.

Similarly to the case of HLA class I motif-bearing peptides, the class II motif-bearing peptides are analoged to improve affinity or cross-reactivity. For example, aspartic acid at position 4 of the 9-mer core sequence is an optimal residue for DR3 binding, and substitution for that residue often improves DR 3 binding.

Example 17 Immunogenicity of 184P1E2-Derived HTL Epitopes

This example determines immunogenic DR supermotif- and DR3 motif-bearing epitopes among those identified using the methodology set forth herein.

Immunogenicity of HTL epitopes are confirmed in a manner analogous to the determination of immunogenicity of CTL epitopes, by assessing the ability to stimulate HTL responses and/or by using appropriate transgenic mouse models. Immunogenicity is determined by screening for: 1.) in vitro primary induction using normal PBMC or 2.) recall responses from patients who have 184P1E2-expressing tumors.

Example 18 Calculation of Phenotypic Frequencies of HLA-Supertypes in Various Ethnic Backgrounds to Determine Breadth of Population Coverage

This example illustrates the assessment of the breadth of population coverage of a vaccine composition comprised of multiple epitopes comprising multiple supermotifs and/or motifs.

In order to analyze population coverage, gene frequencies of HLA alleles are determined. Gene frequencies for each HLA allele are calculated from antigen or allele frequencies utilizing the binomial distribution formulae gf=1−(SQRT(1−af)) (see, e.g., Sidney et al., Human Immunol 45:79-93, 1996). To obtain overall phenotypic frequencies, cumulative gene frequencies are calculated, and the cumulative antigen frequencies derived by the use of the inverse formula [af=1−(1−Cgf)²].

Where frequency data is not available at the level of DNA typing, correspondence to the serologically defined antigen frequencies is assumed. To obtain total potential supertype population coverage no linkage disequilibrium is assumed, and only alleles confirmed to belong to each of the supertypes are included (minimal estimates). Estimates of total potential coverage achieved by inter-loci combinations are made by adding to the A coverage the proportion of the non-A covered population that could be expected to be covered by the B alleles considered (e.g., total=A+B*(1−A)). Confirmed members of the A3-like supertype are A3, All, A31, A*3301, and A*6801. Although the A3-like supertype may also include A34, A66, and A*7401, these alleles were not included in overall frequency calculations. Likewise, confirmed members of the A2-like supertype family are A*0201, A*0202, A*0203, A*0204, A*0205, A*0206, A*0207, A*6802, and A*6901. Finally, the B7-like supertype-confirmed alleles are: B7, B*3501-03, B51, B*5301, B*5401, B*5501-2, B*5601, B*6701, and B*7801 (potentially also B*1401, B*3504-06, B*4201, and B*5602).

Population coverage achieved by combining the A2-, A3- and B7-supertypes is approximately 86% in five major ethnic groups. Coverage may be extended by including peptides bearing the A1 and A24 motifs. On average, A1 is present in 12% and A24 in 29% of the population across five different major ethnic groups (Caucasian, North American Black, Chinese, Japanese, and Hispanic). Together, these alleles are represented with an average frequency of 39% in these same ethnic populations. The total coverage across the major ethnicities when A1 and A24 are combined with the coverage of the A2-, A3- and B7-supertype alleles is >95%. An analogous approach can be used to estimate population coverage achieved with combinations of class II motif-bearing epitopes.

Immunogenicity studies in humans (e.g., Bertoni et al., J. Clin. Invest. 100:503, 1997; Doolan et al., Immunity 7:97, 1997; and Threlkeld et al., J. Immunol. 159:1648, 1997) have shown that highly cross-reactive binding peptides are almost always recognized as epitopes. The use of highly cross-reactive binding peptides is an important selection criterion in identifying candidate epitopes for inclusion in a vaccine that is immunogenic in a diverse population.

With a sufficient number of epitopes (as disclosed herein and from the art), an average population coverage is predicted to be greater than 95% in each of five major ethnic populations. The game theory Monte Carlo simulation analysis, which is known in the art (see e.g., Osborne, M. J. and Rubinstein, A. “A course in game theory” MIT Press, 1994), can be used to estimate what percentage of the individuals in a population comprised of the Caucasian, North American Black, Japanese, Chinese, and Hispanic ethnic groups would recognize the vaccine epitopes described herein. A preferred percentage is 90%. A more preferred percentage is 95%.

Example 19 CTL Recognition of Endogenously Processed Antigens after Priming

This example confirms that CTL induced by native or analoged peptide epitopes identified and selected as described herein recognize endogenously synthesized, i.e., native antigens.

Effector cells isolated from transgenic mice that are immunized with peptide epitopes, for example HLA-A2 supermotif-bearing epitopes, are re-stimulated in vitro using peptide-coated stimulator cells. Six days later, effector cells are assayed for cytotoxicity and the cell lines that contain peptide-specific cytotoxic activity are further re-stimulated. An additional six days later, these cell lines are tested for cytotoxic activity on ⁵¹Cr labeled Jurkat-A2.1/K^(b) target cells in the absence or presence of peptide, and also tested on ⁵¹Cr labeled target cells bearing the endogenously synthesized antigen, i.e. cells that are stably transfected with 184P1E2 expression vectors.

The results demonstrate that CTL lines obtained from animals primed with peptide epitope recognize endogenously synthesized 184P1E2 antigen. The choice of transgenic mouse model to be used for such an analysis depends upon the epitope(s) that are being evaluated. In addition to HLA-A*0201/K^(b) transgenic mice, several other transgenic mouse models including mice with human A11, which may also be used to evaluate A3 epitopes, and B7 alleles have been characterized and others (e.g., transgenic mice for HLA-A1 and A24) are being developed. HLA-DR1 and HLA-DR3 mouse models have also been developed, which may be used to evaluate HTL epitopes.

Example 20 Activity of CTL-HTL Conjugated Epitopes in Transgenic Mice

This example illustrates the induction of CTLs and HTLs in transgenic mice, by use of a 184P1E2-derived CTL and HTL peptide vaccine compositions. The vaccine composition used herein comprise peptides to be administered to a patient with a 184P1E2-expressing tumor. The peptide composition can comprise multiple CTL and/or HTL epitopes. The epitopes are identified using methodology as described herein. This example also illustrates that enhanced immunogenicity can be achieved by inclusion of one or more HTL epitopes in a CTL vaccine composition; such a peptide composition can comprise an HTL epitope conjugated to a CTL epitope. The CTL epitope can be one that binds to multiple HLA family members at an affinity of 500 nM or less, or analogs of that epitope. The peptides may be lipidated, if desired.

Immunization procedures: Immunization of transgenic mice is performed as described (Alexander et al., J. Immunol. 159:4753-4761, 1997). For example, A2/K^(b) mice, which are transgenic for the human HLA A2.1 allele and are used to confirm the immunogenicity of HLA-A*0201 motif- or HLA-A2 supermotif-bearing epitopes, and are primed subcutaneously (base of the tail) with a 0.1 ml of peptide in Incomplete Freund's Adjuvant, or if the peptide composition is a lipidated CTL/HTL conjugate, in DMSO/saline, or if the peptide composition is a polypeptide, in PBS or Incomplete Freund's Adjuvant. Seven days after priming, splenocytes obtained from these animals are restimulated with syngenic irradiated LPS-activated lymphoblasts coated with peptide.

Cell lines: Target cells for peptide-specific cytotoxicity assays are Jurkat cells transfected with the HLA-A2.1/K^(b) chimeric gene (e.g., Vitiello et al., J. Exp. Med. 173:1007, 1991)

In vitro CTL activation: One week after priming, spleen cells (30×10⁶ cells/flask) are co-cultured at 37° C. with syngeneic, irradiated (3000 rads), peptide coated lymphoblasts (10×10⁶ cells/flask) in 10 ml of culture medium/T25 flask. After six days, effector cells are harvested and assayed for cytotoxic activity.

Assay for cytotoxic activity: Target cells (1.0 to 1.5×10⁶) are incubated at 37° C. in the presence of 200 μl of ⁵¹Cr. After 60 minutes, cells are washed three times and resuspended in R10 medium. Peptide is added where required at a concentration of 1 μg/ml. For the assay, 10⁴ ⁵¹Cr-labeled target cells are added to different concentrations of effector cells (final volume of 200 μl) in U-bottom 96-well plates. After a six hour incubation period at 37° C., a 0.1 ml aliquot of supernatant is removed from each well and radioactivity is determined in a Micromedic automatic gamma counter. The percent specific lysis is determined by the formula: percent specific release=100× (experimental release−spontaneous release)/(maximum release−spontaneous release). To facilitate comparison between separate CTL assays run under the same conditions, % ⁵¹Cr release data is expressed as lytic units/10⁶ cells. One lytic unit is arbitrarily defined as the number of effector cells required to achieve 30% lysis of 10,000 target cells in a six hour ⁵¹Cr release assay. To obtain specific lytic units/10⁶, the lytic units/10⁶ obtained in the absence of peptide is subtracted from the lytic units/10⁶ obtained in the presence of peptide. For example, if 30% ⁵¹Cr release is obtained at the effector (E): target (T) ratio of 50:1 (i.e., 5×10⁵ effector cells for 10,000 targets) in the absence of peptide and 5:1 (i.e., 5×10⁴ effector cells for 10,000 targets) in the presence of peptide, the specific lytic units would be: [(1/50,000)−(1/500,000)]×10⁶=18 LU.

The results are analyzed to assess the magnitude of the CTL responses of animals injected with the immunogenic CTL/HTL conjugate vaccine preparation and are compared to the magnitude of the CTL response achieved using, for example, CTL epitopes as outlined above in the Example entitled “Confirmation of Immunogenicity.” Analyses similar to this may be performed to confirm the immunogenicity of peptide conjugates containing multiple CTL epitopes and/or multiple HTL epitopes. In accordance with these procedures, it is found that a CTL response is induced, and concomitantly that an HTL response is induced upon administration of such compositions.

Example 21 Selection of CTL and HTL Epitopes for Inclusion in a 184P1E2-Specific Vaccine

This example illustrates a procedure for selecting peptide epitopes for vaccine compositions of the invention. The peptides in the composition can be in the form of a nucleic acid sequence, either single or one or more sequences (i.e., minigene) that encodes peptide(s), or can be single and/or polyepitopic peptides.

The following principles are utilized when selecting a plurality of epitopes for inclusion in a vaccine composition. Each of the following principles is balanced in order to make the selection.

Epitopes are selected which, upon administration, mimic immune responses that are correlated with 184P1E2 clearance. The number of epitopes used depends on observations of patients who spontaneously clear 184P1E2. For example, if it has been observed that patients who spontaneously clear 184P1E2-expressing cells generate an immune response to at least three (3) epitopes from 184P1E2 antigen, then at least three epitopes should be included for HLA class I. A similar rationale is used to determine HLA class II epitopes.

Epitopes are often selected that have a binding affinity of an IC₅₀ of 500 nM or less for an HLA class I molecule, or for class II, an IC₅₀ of 1000 nM or less; or HLA Class I peptides with high binding scores from the BIMAS web site, at URL bimas.dcrt.nih.gov/.

In order to achieve broad coverage of the vaccine through out a diverse population, sufficient supermotif bearing peptides, or a sufficient array of allele-specific motif bearing peptides, are selected to give broad population coverage. In one embodiment, epitopes are selected to provide at least 80% population coverage. A Monte Carlo analysis, a statistical evaluation known in the art, can be employed to assess breadth, or redundancy, of population coverage.

When creating polyepitopic compositions, or a minigene that encodes same, it is typically desirable to generate the smallest peptide possible that encompasses the epitopes of interest. The principles employed are similar, if not the same, as those employed when selecting a peptide comprising nested epitopes. For example, a protein sequence for the vaccine composition is selected because it has maximal number of epitopes contained within the sequence, i.e., it has a high concentration of epitopes. Epitopes may be nested or overlapping (i.e., frame shifted relative to one another). For example, with overlapping epitopes, two 9-mer epitopes and one 10-mer epitope can be present in a 10 amino acid peptide. Each epitope can be exposed and bound by an HLA molecule upon administration of such a peptide. A multi-epitopic, peptide can be generated synthetically, recombinantly, or via cleavage from the native source. Alternatively, an analog can be made of this native sequence, whereby one or more of the epitopes comprise substitutions that alter the cross-reactivity and/or binding affinity properties of the polyepitopic peptide. Such a vaccine composition is administered for therapeutic or prophylactic purposes. This embodiment provides for the possibility that an as yet undiscovered aspect of immune system processing will apply to the native nested sequence and thereby facilitate the production of therapeutic or prophylactic immune response-inducing vaccine compositions. Additionally such an embodiment provides for the possibility of motif-bearing epitopes for an HLA makeup that is presently unknown. Furthermore, this embodiment (absent the creating of any analogs) directs the immune response to multiple peptide sequences that are actually present in 184P1E2, thus avoiding the need to evaluate any junctional epitopes. Lastly, the embodiment provides an economy of scale when producing nucleic acid vaccine compositions. Related to this embodiment, computer programs can be derived in accordance with principles in the art, which identify in a target sequence, the greatest number of epitopes per sequence length.

A vaccine composition comprised of selected peptides, when administered, is safe, efficacious, and elicits an immune response similar in magnitude to an immune response that controls or clears cells that bear or overexpress 184P1E2.

Example 22 Construction of “Minigene” Multi-Epitope DNA Plasmids

This example discusses the construction of a minigene expression plasmid. Minigene plasmids may, of course, contain various configurations of B cell, CTL and/or HTL epitopes or epitope analogs as described herein.

A minigene expression plasmid typically includes multiple CTL and HTL peptide epitopes. In the present example, HLA-A2, -A3, -B7 supermotif-bearing peptide epitopes and HLA-A1 and -A24 motif-bearing peptide epitopes are used in conjunction with DR supermotif-bearing epitopes and/or DR3 epitopes. HLA class I supermotif or motif-bearing peptide epitopes derived 184P1E2, are selected such that multiple supermotifs/motifs are represented to ensure broad population coverage. Similarly, HLA class II epitopes are selected from 184P1E2 to provide broad population coverage, i.e. both HLA DR-1-4-7 supermotif-bearing epitopes and HLA DR-3 motif-bearing epitopes are selected for inclusion in the minigene construct. The selected CTL and HTL epitopes are then incorporated into a minigene for expression in an expression vector.

Such a construct may additionally include sequences that direct the HTL epitopes to the endoplasmic reticulum. For example, the Ii protein may be fused to one or more HTL epitopes as described in the art, wherein the CLIP sequence of the Ii protein is removed and replaced with an HLA class II epitope sequence so that HLA class II epitope is directed to the endoplasmic reticulum, where the epitope binds to an HLA class II molecules.

This example illustrates the methods to be used for construction of a minigene-bearing expression plasmid. Other expression vectors that may be used for minigene compositions are available and known to those of skill in the art.

The minigene DNA plasmid of this example contains a consensus Kozak sequence and a consensus murine kappa Ig-light chain signal sequence followed by CTL and/or HTL epitopes selected in accordance with principles disclosed herein. The sequence encodes an open reading frame fused to the Myc and His antibody epitope tag coded for by the pcDNA 3.1 Myc-His vector.

Overlapping oligonucleotides that can, for example, average about 70 nucleotides in length with 15 nucleotide overlaps, are synthesized and HPLC-purified. The oligonucleotides encode the selected peptide epitopes as well as appropriate linker nucleotides, Kozak sequence, and signal sequence. The final multiepitope minigene is assembled by extending the overlapping oligonucleotides in three sets of reactions using PCR. A Perkin/Elmer 9600 PCR machine is used and a total of 30 cycles are performed using the following conditions: 95° C. for 15 sec, annealing temperature (5° below the lowest calculated Tm of each primer pair) for 30 sec, and 72° C. for 1 min.

For example, a minigene is prepared as follows. For a first PCR reaction, 5 μg of each of two oligonucleotides are annealed and extended: In an example using eight oligonucleotides, i.e., four pairs of primers, oligonucleotides 1+2, 3+4, 5+6, and 7+8 are combined in 100 μl reactions containing Pfu polymerase buffer (1×=10 mM KCL, 10 mM (NH₄)₂SO₄, 20 mM Tris-chloride, pH 8.75, 2 mM MgSO₄, 0.1% Triton X-100, 100 μg/ml BSA), 0.25 mM each dNTP, and 2.5 U of Pfu polymerase. The full-length dimer products are gel-purified, and two reactions containing the product of 1+2 and 3+4, and the product of 5+6 and 7+8 are mixed, annealed, and extended for 10 cycles. Half of the two reactions are then mixed, and 5 cycles of annealing and extension carried out before flanking primers are added to amplify the full length product. The full-length product is gel-purified and cloned into pCR-blunt (Invitrogen) and individual clones are screened by sequencing.

Example 23 The Plasmid Construct and the Degree to which it Induces Immunogenicity

The degree to which a plasmid construct, for example a plasmid constructed in accordance with the previous Example, is able to induce immunogenicity is confirmed in vitro by determining epitope presentation by APC following transduction or transfection of the APC with an epitope-expressing nucleic acid construct. Such a study determines “antigenicity” and allows the use of human APC. The assay determines the ability of the epitope to be presented by the APC in a context that is recognized by a T cell by quantifying the density of epitope-HLA class I complexes on the cell surface. Quantitation can be performed by directly measuring the amount of peptide eluted from the APC (see, e.g., Sijts et al., J. Immunol. 156:683-692, 1996; Demotz et al., Nature 342:682-684, 1989); or the number of peptide-HLA class I complexes can be estimated by measuring the amount of lysis or lymphokine release induced by diseased or transfected target cells, and then determining the concentration of peptide necessary to obtain equivalent levels of lysis or lymphokine release (see, e.g., Kageyama et al., J. Immunol. 154:567-576, 1995).

Alternatively, immunogenicity is confirmed through in vivo injections into mice and subsequent in vitro assessment of CTL and HTL activity, which are analyzed using cytotoxicity and proliferation assays, respectively, as detailed e.g., in Alexander et al., Immunity 1:751-761, 1994.

For example, to confirm the capacity of a DNA minigene construct containing at least one HLA-A2 supermotif peptide to induce CTLs in vivo, HLA-A2.1/K^(b) transgenic mice, for example, are immunized intramuscularly with 100 μg of naked cDNA. As a means of comparing the level of CTLs induced by cDNA immunization, a control group of animals is also immunized with an actual peptide composition that comprises multiple epitopes synthesized as a single polypeptide as they would be encoded by the minigene.

Splenocytes from immunized animals are stimulated twice with each of the respective compositions (peptide epitopes encoded in the minigene or the polyepitopic peptide), then assayed for peptide-specific cytotoxic activity in a ⁵¹Cr release assay. The results indicate the magnitude of the CTL response directed against the A2-restricted epitope, thus indicating the in vivo immunogenicity of the minigene vaccine and polyepitopic vaccine.

It is, therefore, found that the minigene elicits immune responses directed toward the HLA-A2 supermotif peptide epitopes as does the polyepitopic peptide vaccine. A similar analysis is also performed using other HLA-A3 and HLA-B7 transgenic mouse models to assess CTL induction by HLA-A3 and HLA-B7 motif or supermotif epitopes, whereby it is also found that the minigene elicits appropriate immune responses directed toward the provided epitopes.

To confirm the capacity of a class II epitope-encoding minigene to induce HTLs in vivo, DR transgenic mice, or for those epitopes that cross react with the appropriate mouse MHC molecule, I-A^(b)-restricted mice, for example, are immunized intramuscularly with 100 μg of plasmid DNA. As a means of comparing the level of HTLs induced by DNA immunization, a group of control animals is also immunized with an actual peptide composition emulsified in complete Freund's adjuvant. CD4+ T cells, i.e. HTLs, are purified from splenocytes of immunized animals and stimulated with each of the respective compositions (peptides encoded in the minigene). The HTL response is measured using a ³H-thymidine incorporation proliferation assay, (see, e.g., Alexander et al. Immunity 1:751-761, 1994). The results indicate the magnitude of the HTL response, thus demonstrating the in vivo immunogenicity of the mini gene.

DNA minigenes, constructed as described in the previous Example, can also be confirmed as a vaccine in combination with a boosting agent using a prime boost protocol. The boosting agent can consist of recombinant protein (e.g., Barnett et al., Aids Res. and Human Retroviruses 14, Supplement 3:S299-S309, 1998) or recombinant vaccinia, for example, expressing a minigene or DNA encoding the complete protein of interest (see, e.g., Hanke et al., Vaccine 16:439-445, 1998; Sedegah et al., Proc. Natl. Acad. Sci. USA 95:7648-53, 1998; Hanke and McMichael, Immunol. Letters 66:177-181, 1999; and Robinson et al., Nature Med. 5:526-34, 1999).

For example, the efficacy of the DNA minigene used in a prime boost protocol is initially evaluated in transgenic mice. In this example, A2.1/K^(b) transgenic mice are immunized IM with 100 μg of a DNA minigene encoding the immunogenic peptides including at least one HLA-A2 supermotif-bearing peptide. After an incubation period (ranging from 3-9 weeks), the mice are boosted IP with 10⁷ pfu/mouse of a recombinant vaccinia virus expressing the same sequence encoded by the DNA minigene. Control mice are immunized with 100 μg of DNA or recombinant vaccinia without the minigene sequence, or with DNA encoding the minigene, but without the vaccinia boost. After an additional incubation period of two weeks, splenocytes from the mice are immediately assayed for peptide-specific activity in an ELISPOT assay. Additionally, splenocytes are stimulated in vitro with the A2-restricted peptide epitopes encoded in the minigene and recombinant vaccinia, then assayed for peptide-specific activity in an alpha, beta and/or gamma IFN ELISA.

It is found that the minigene utilized in a prime-boost protocol elicits greater immune responses toward the HLA-A2 supermotif peptides than with DNA alone. Such an analysis can also be performed using HLA-A11 or HLA-B7 transgenic mouse models to assess CTL induction by HLA-A3 or HLA-B7 motif or supermotif epitopes. The use of prime boost protocols in humans is described below in the Example entitled “Induction of CTL Responses Using a Prime Boost Protocol.”

Example 24 Peptide Compositions for Prophylactic Uses

Vaccine compositions of the present invention can be used to prevent 184P1E2 expression in persons who are at risk for tumors that bear this antigen. For example, a polyepitopic peptide epitope composition (or a nucleic acid comprising the same) containing multiple CTL and HTL epitopes such as those selected in the above Examples, which are also selected to target greater than 80% of the population, is administered to individuals at risk for a 184P1E2-associated tumor.

For example, a peptide-based composition is provided as a single polypeptide that encompasses multiple epitopes. The vaccine is typically administered in a physiological solution that comprises an adjuvant, such as Incomplete Freunds Adjuvant. The dose of peptide for the initial immunization is from about 1 to about 50,000 μg, generally 100-5,000 μg, for a 70 kg patient. The initial administration of vaccine is followed by booster dosages at 4 weeks followed by evaluation of the magnitude of the immune response in the patient, by techniques that determine the presence of epitope-specific CTL populations in a PBMC sample. Additional booster doses are administered as required. The composition is found to be both safe and efficacious as a prophylaxis against 184P1E2-associated disease.

Alternatively, a composition typically comprising transfecting agents is used for the administration of a nucleic acid-based vaccine in accordance with methodologies known in the art and disclosed herein.

Example 25 Polyepitopic Vaccine Compositions Derived from Native 184P1E2 Sequences

A native 184P1E2 polyprotein sequence is analyzed, preferably using computer algorithms defined for each class I and/or class II supermotif or motif, to identify “relatively short” regions of the polyprotein that comprise multiple epitopes. The “relatively short” regions are preferably less in length than an entire native antigen. This relatively short sequence that contains multiple distinct or overlapping, “nested” epitopes can be used to generate a minigene construct. The construct is engineered to express the peptide, which corresponds to the native protein sequence. The “relatively short” peptide is generally less than 250 amino acids in length, often less than 100 amino acids in length, preferably less than 75 amino acids in length, and more preferably less than 50 amino acids in length. The protein sequence of the vaccine composition is selected because it has maximal number of epitopes contained within the sequence, i.e., it has a high concentration of epitopes. As noted herein, epitope motifs may be nested or overlapping (i.e., frame shifted relative to one another). For example, with overlapping epitopes, two 9-mer epitopes and one 10-mer epitope can be present in a 10 amino acid peptide. Such a vaccine composition is administered for therapeutic or prophylactic purposes.

The vaccine composition will include, for example, multiple CTL epitopes from 184P1E2 antigen and at least one HTL epitope. This polyepitopic native sequence is administered either as a peptide or as a nucleic acid sequence which encodes the peptide. Alternatively, an analog can be made of this native sequence, whereby one or more of the epitopes comprise substitutions that alter the cross-reactivity and/or binding affinity properties of the polyepitopic peptide.

The embodiment of this example provides for the possibility that an as yet undiscovered aspect of immune system processing will apply to the native nested sequence and thereby facilitate the production of therapeutic or prophylactic immune response-inducing vaccine compositions. Additionally, such an embodiment provides for the possibility of motif-bearing epitopes for an HLA makeup(s) that is presently unknown. Furthermore, this embodiment (excluding an analoged embodiment) directs the immune response to multiple peptide sequences that are actually present in native 184P1E2, thus avoiding the need to evaluate any junctional epitopes. Lastly, the embodiment provides an economy of scale when producing peptide or nucleic acid vaccine compositions.

Related to this embodiment, computer programs are available in the art which can be used to identify in a target sequence, the greatest number of epitopes per sequence length.

Example 26 Polyepitopic Vaccine Compositions from Multiple Antigens

The 184P1E2 peptide epitopes of the present invention are used in conjunction with epitopes from other target tumor-associated antigens, to create a vaccine composition that is useful for the prevention or treatment of cancer that expresses 184P1E2 and such other antigens. For example, a vaccine composition can be provided as a single polypeptide that incorporates multiple epitopes from 184P1E2 as well as tumor-associated antigens that are often expressed with a target cancer associated with 184P1E2 expression, or can be administered as a composition comprising a cocktail of one or more discrete epitopes. Alternatively, the vaccine can be administered as a minigene construct or as dendritic cells which have been loaded with the peptide epitopes in vitro.

Example 27 Use of Peptides to Evaluate an Immune Response

Peptides of the invention may be used to analyze an immune response for the presence of specific antibodies, CTL or HTL directed to 184P1E2. Such an analysis can be performed in a manner described by Ogg et al., Science 279:2103-2106, 1998. In this Example, peptides in accordance with the invention are used as a reagent for diagnostic or prognostic purposes, not as an immunogen.

In this example highly sensitive human leukocyte antigen tetrameric complexes (“tetramers”) are used for a cross-sectional analysis of, for example, 184P1E2 HLA-A*0201-specific CTL frequencies from HLA A*0201-positive individuals at different stages of disease or following immunization comprising a 184P1E2 peptide containing an A*0201 motif. Tetrameric complexes are synthesized as described (Musey et al., N. Engl. J. Med. 337:1267, 1997). Briefly, purified HLA heavy chain (A*0201 in this example) and β2-microglobulin are synthesized by means of a prokaryotic expression system. The heavy chain is modified by deletion of the transmembrane-cytosolic tail and COOH-terminal addition of a sequence containing a BirA enzymatic biotinylation site. The heavy chain, β2-microglobulin, and peptide are refolded by dilution. The 45-kD refolded product is isolated by fast protein liquid chromatography and then biotinylated by BirA in the presence of biotin (Sigma, St. Louis, Mo.), adenosine 5′ triphosphate and magnesium. Streptavidin-phycoerythrin conjugate is added in a 1:4 molar ratio, and the tetrameric product is concentrated to 1 mg/ml. The resulting product is referred to as tetramer-phycoerythrin.

For the analysis of patient blood samples, approximately one million PBMCs are centrifuged at 300 g for 5 minutes and resuspended in 50 μl of cold phosphate-buffered saline. Tri-color analysis is performed with the tetramer-phycoerythrin, along with anti-CD8-Tricolor, and anti-CD38. The PBMCs are incubated with tetramer and antibodies on ice for 30 to 60 min and then washed twice before formaldehyde fixation. Gates are applied to contain >99.98% of control samples. Controls for the tetramers include both A*0201-negative individuals and A*0201-positive non-diseased donors. The percentage of cells stained with the tetramer is then determined by flow cytometry. The results indicate the number of cells in the PBMC sample that contain epitope-restricted CTLs, thereby readily indicating the extent of immune response to the 184P1E2 epitope, and thus the status of exposure to 184P1E2, or exposure to a vaccine that elicits a protective or therapeutic response.

Example 28 Use of Peptide Epitopes to Evaluate Recall Responses

The peptide epitopes of the invention are used as reagents to evaluate T cell responses, such as acute or recall responses, in patients. Such an analysis may be performed on patients who have recovered from 184P1E2-associated disease or who have been vaccinated with a 184P1E2 vaccine.

For example, the class I restricted CTL response of persons who have been vaccinated may be analyzed. The vaccine may be any 184P1E2 vaccine. PBMC are collected from vaccinated individuals and HLA typed. Appropriate peptide epitopes of the invention that, optimally, bear supermotifs to provide cross-reactivity with multiple HLA supertype family members, are then used for analysis of samples derived from individuals who bear that HLA type.

PBMC from vaccinated individuals are separated on Ficoll-Histopaque density gradients (Sigma Chemical Co., St. Louis, Mo.), washed three times in HBSS (GIBCO Laboratories), resuspended in RPMI-1640 (GIBCO Laboratories) supplemented with L-glutamine (2 mM), penicillin (50 U/ml), streptomycin (50 μg/ml), and Hepes (10 mM) containing 10% heat-inactivated human AB serum (complete RPMI) and plated using microculture formats. A synthetic peptide comprising an epitope of the invention is added at 10 μg/ml to each well and HBV core 128-140 epitope is added at 1 μg/ml to each well as a source of T cell help during the first week of stimulation.

In the microculture format, 4×10⁵ PBMC are stimulated with peptide in 8 replicate cultures in 96-well round bottom plate in 100 μl/well of complete RPMI. On days 3 and 10, 100 μl of complete RPMI and 20 U/ml final concentration of rIL-2 are added to each well. On day 7 the cultures are transferred into a 96-well flat-bottom plate and restimulated with peptide, rIL-2 and 105 irradiated (3,000 rad) autologous feeder cells. The cultures are tested for cytotoxic activity on day 14. A positive CTL response requires two or more of the eight replicate cultures to display greater than 10% specific ⁵¹Cr release, based on comparison with non-diseased control subjects as previously described (Rehermann, et al., Nature Med. 2:1104, 1108, 1996; Rehermann et al., J. Clin. Invest. 97:1655-1665, 1996; and Rehermann et al. J. Clin. Invest. 98:1432-1440, 1996).

Target cell lines are autologous and allogeneic EBV-transformed B-LCL that are either purchased from the American Society for Histocompatibility and Immunogenetics (ASHI, Boston, Mass.) or established from the pool of patients as described (Guilhot, et al. J. Virol. 66:2670-2678, 1992).

Cytotoxicity assays are performed in the following manner. Target cells consist of either allogeneic HLA-matched or autologous EBV-transformed B lymphoblastoid cell line that are incubated overnight with the synthetic peptide epitope of the invention at 10 μM, and labeled with 100 μCi of ⁵¹Cr (Amersham Corp., Arlington Heights, Ill.) for 1 hour after which they are washed four times with HBSS.

Cytolytic activity is determined in a standard 4-h, split well ⁵¹Cr release assay using U-bottomed 96 well plates containing 3,000 targets/well. Stimulated PBMC are tested at effector/target (E/T) ratios of 20-50:1 on day 14. Percent cytotoxicity is determined from the formula: 100×[(experimental release-spontaneous release)/maximum release-spontaneous release)]. Maximum release is determined by lysis of targets by detergent (2% Triton X-100; Sigma Chemical Co., St. Louis, Mo.). Spontaneous release is <25% of maximum release for all experiments.

The results of such an analysis indicate the extent to which HLA-restricted CTL populations have been stimulated by previous exposure to 184P1E2 or a 184P1E2 vaccine.

Similarly, Class II restricted HTL responses may also be analyzed. Purified PBMC are cultured in a 96-well flat bottom plate at a density of 1.5×10⁵ cells/well and are stimulated with 10 μg/ml synthetic peptide of the invention, whole 184P1E2 antigen, or PHA. Cells are routinely plated in replicates of 4-6 wells for each condition. After seven days of culture, the medium is removed and replaced with fresh medium containing 10 U/ml IL-2. Two days later, 1 μCi ³H-thymidine is added to each well and incubation is continued for an additional 18 hours. Cellular DNA is then harvested on glass fiber mats and analyzed for ³H-thymidine incorporation. Antigen-specific T cell proliferation is calculated as the ratio of ³H-thymidine incorporation in the presence of antigen divided by the ³H-thymidine incorporation in the absence of antigen.

Example 29 Induction of Specific CTL Response in Humans

A human clinical trial for an immunogenic composition comprising CTL and HTL epitopes of the invention is set up as an IND Phase I, dose escalation study and carried out as a randomized, double-blind, placebo-controlled trial. Such a trial is designed, for example, as follows:

A total of about 27 individuals are enrolled and divided into 3 groups:

Group I: 3 subjects are injected with placebo and 6 subjects are injected with 5 μg of peptide composition;

Group II: 3 subjects are injected with placebo and 6 subjects are injected with 50 μg peptide composition;

Group III: 3 subjects are injected with placebo and 6 subjects are injected with 500 μg of peptide composition.

After 4 weeks following the first injection, all subjects receive a booster inoculation at the same dosage.

The endpoints measured in this study relate to the safety and tolerability of the peptide composition as well as its immunogenicity. Cellular immune responses to the peptide composition are an index of the intrinsic activity of this the peptide composition, and can therefore be viewed as a measure of biological efficacy. The following summarize the clinical and laboratory data that relate to safety and efficacy endpoints.

Safety: The incidence of adverse events is monitored in the placebo and drug treatment group and assessed in terms of degree and reversibility.

Evaluation of Vaccine Efficacy: For evaluation of vaccine efficacy, subjects are bled before and after injection. Peripheral blood mononuclear cells are isolated from fresh heparinized blood by Ficoll-Hypaque density gradient centrifugation, aliquoted in freezing media and stored frozen. Samples are assayed for CTL and HTL activity.

The vaccine is found to be both safe and efficacious.

Example 30 Phase II Trials in Patients Expressing 184P1E2

Phase II trials are performed to study the effect of administering the CTL-HTL peptide compositions to patients having cancer that expresses 184P1E2. The main objectives of the trial are to determine an effective dose and regimen for inducing CTLs in cancer patients that express 184P1E2, to establish the safety of inducing a CTL and HTL response in these patients, and to see to what extent activation of CTLs improves the clinical picture of these patients, as manifested, e.g., by the reduction and/or shrinking of lesions. Such a study is designed, for example, as follows:

The studies are performed in multiple centers. The trial design is an open-label, uncontrolled, dose escalation protocol wherein the peptide composition is administered as a single dose followed six weeks later by a single booster shot of the same dose. The dosages are 50, 500 and 5,000 micrograms per injection. Drug-associated adverse effects (severity and reversibility) are recorded.

There are three patient groupings. The first group is injected with 50 micrograms of the peptide composition and the second and third groups with 500 and 5,000 micrograms of peptide composition, respectively. The patients within each group range in age from 21-65 and represent diverse ethnic backgrounds. All of them have a tumor that expresses 184P1E2.

Clinical manifestations or antigen-specific T-cell responses are monitored to assess the effects of administering the peptide compositions. The vaccine composition is found to be both safe and efficacious in the treatment of 184P1E2-associated disease.

Example 31 Induction of CTL Responses Using a Prime Boost Protocol

A prime boost protocol similar in its underlying principle to that used to confirm the efficacy of a DNA vaccine in transgenic mice, such as described above in the Example entitled “The Plasmid Construct and the Degree to Which It Induces Immunogenicity,” can also be used for the administration of the vaccine to humans. Such a vaccine regimen can include an initial administration of, for example, naked DNA followed by a boost using recombinant virus encoding the vaccine, or recombinant protein/polypeptide or a peptide mixture administered in an adjuvant.

For example, the initial immunization may be performed using an expression vector, such as that constructed in the Example entitled “Construction of “Minigene” Multi-Epitope DNA Plasmids” in the form of naked nucleic acid administered IM (or SC or ID) in the amounts of 0.5-5 mg at multiple sites. The nucleic acid (0.1 to 1000 μg) can also be administered using a gene gun. Following an incubation period of 3-4 weeks, a booster dose is then administered. The booster can be recombinant fowlpox virus administered at a dose of 5-10⁷ to 5×10⁹ pfu. An alternative recombinant virus, such as an MVA, canarypox, adenovirus, or adeno-associated virus, can also be used for the booster, or the polyepitopic protein or a mixture of the peptides can be administered. For evaluation of vaccine efficacy, patient blood samples are obtained before immunization as well as at intervals following administration of the initial vaccine and booster doses of the vaccine. Peripheral blood mononuclear cells are isolated from fresh heparinized blood by Ficoll-Hypaque density gradient centrifugation, aliquoted in freezing media and stored frozen. Samples are assayed for CTL and HTL activity.

Analysis of the results indicates that a magnitude of response sufficient to achieve a therapeutic or protective immunity against 184P1E2 is generated.

Example 32 Administration of Vaccine Compositions Using Dendritic Cells (DC)

Vaccines comprising peptide epitopes of the invention can be administered using APCs, or “professional” APCs such as DC. In this example, peptide-pulsed DC are administered to a patient to stimulate a CTL response in vivo. In this method, dendritic cells are isolated, expanded, and pulsed with a vaccine comprising peptide CTL and HTL epitopes of the invention. The dendritic cells are infused back into the patient to elicit CTL and HTL responses in vivo. The induced CTL and HTL then destroy or facilitate destruction, respectively, of the target cells that bear the 184P1E2 protein from which the epitopes in the vaccine are derived.

For example, a cocktail of epitope-comprising peptides is administered ex vivo to PBMC, or isolated DC therefrom. A pharmaceutical to facilitate harvesting of DC can be used, such as Progenipoietin™ (Monsanto, St. Louis, Mo.) or GM-CSF/IL-4. After pulsing the DC with peptides, and prior to reinfusion into patients, the DC are washed to remove unbound peptides.

As appreciated clinically, and readily determined by one of skill based on clinical outcomes, the number of DC reinfused into the patient can vary (see, e.g., Nature Med. 4:328, 1998; Nature Med. 2:52, 1996 and Prostate 32:272, 1997). Although 2-50×10⁶ DC per patient are typically administered, larger number of DC, such as 10⁷ or 10⁸ can also be provided. Such cell populations typically contain between 50-90% DC.

In some embodiments, peptide-loaded PBMC are injected into patients without purification of the DC. For example, PBMC generated after treatment with an agent such as Progenipoietin™ are injected into patients without purification of the DC. The total number of PBMC that are administered often ranges from 10⁸ to 10¹⁰. Generally, the cell doses injected into patients is based on the percentage of DC in the blood of each patient, as determined, for example, by immunofluorescence analysis with specific anti-DC antibodies. Thus, for example, if Progenipoietin™ mobilizes 2% DC in the peripheral blood of a given patient, and that patient is to receive 5×10⁶ DC, then the patient will be injected with a total of 2.5×10⁸ peptide-loaded PBMC. The percent DC mobilized by an agent such as Progenipoietin™ is typically estimated to be between 2-10%, but can vary as appreciated by one of skill in the art.

Ex Vivo Activation of CTL/HTL Responses

Alternatively, ex vivo CTL or HTL responses to 184P1E2 antigens can be induced by incubating, in tissue culture, the patient's, or genetically compatible, CTL or HTL precursor cells together with a source of APC, such as DC, and immunogenic peptides. After an appropriate incubation time (typically about 7-28 days), in which the precursor cells are activated and expanded into effector cells, the cells are infused into the patient, where they will destroy (CTL) or facilitate destruction (HTL) of their specific target cells, i.e., tumor cells.

Example 33 An Alternative Method of Identifying and Confirming Motif-Bearing Peptides

Another method of identifying and confirming motif-bearing peptides is to elute them from cells bearing defined MHC molecules. For example, EBV transformed B cell lines used for tissue typing have been extensively characterized to determine which HLA molecules they express. In certain cases these cells express only a single type of HLA molecule. These cells can be transfected with nucleic acids that express the antigen of interest, e.g. 184P1E2. Peptides produced by endogenous antigen processing of peptides produced as a result of transfection will then bind to HLA molecules within the cell and be transported and displayed on the cell's surface. Peptides are then eluted from the HLA molecules by exposure to mild acid conditions and their amino acid sequence determined, e.g., by mass spectral analysis (e.g., Kubo et al., J. Immunol. 152:3913, 1994). Because the majority of peptides that bind a particular HLA molecule are motif-bearing, this is an alternative modality for obtaining the motif-bearing peptides correlated with the particular HLA molecule expressed on the cell.

Alternatively, cell lines that do not express endogenous HLA molecules can be transfected with an expression construct encoding a single HLA allele. These cells can then be used as described, i.e., they can then be transfected with nucleic acids that encode 184P1E2 to isolate peptides corresponding to 184P1E2 that have been presented on the cell surface. Peptides obtained from such an analysis will bear motif(s) that correspond to binding to the single HLA allele that is expressed in the cell.

As appreciated by one in the art, one can perform a similar analysis on a cell bearing more than one

HLA allele and subsequently determine peptides specific for each HLA allele expressed. Moreover, one of skill would also recognize that means other than transfection, such as loading with a protein antigen, can be used to provide a source of antigen to the cell.

Example 34 Complementary Polynucleotides

Sequences complementary to the 184P1E2-encoding sequences, or any parts thereof, are used to detect, decrease, or inhibit expression of naturally occurring 184P1E2. Although use of oligonucleotides comprising from about 15 to 30 base pairs is described, essentially the same procedure is used with smaller or with larger sequence fragments. Appropriate oligonucleotides are designed using, e.g., OLIGO 4.06 software (National Biosciences) and the coding sequence of 184P1E2. To inhibit transcription, a complementary oligonucleotide is designed from the most unique 5′ sequence and used to prevent promoter binding to the coding sequence. To inhibit translation, a complementary oligonucleotide is designed to prevent ribosomal binding to a 184P1E2-encoding transcript.

Example 35 Purification of Naturally-Occurring or Recombinant 184P1E2 Using 184P1E2-Specific Antibodies

Naturally occurring or recombinant 184P1E2 is substantially purified by immunoaffinity chromatography using antibodies specific for 184P1E2. An immunoaffinity column is constructed by covalently coupling anti-184P1E2 antibody to an activated chromatographic resin, such as CNBr-activated SEPHAROSE (Amersham Pharmacia Biotech). After the coupling, the resin is blocked and washed according to the manufacturer's instructions.

Media containing 184P1E2 are passed over the immunoaffinity column, and the column is washed under conditions that allow the preferential absorbance of 184P1E2 (e.g., high ionic strength buffers in the presence of detergent). The column is eluted under conditions that disrupt antibody/184P1E2 binding (e.g., a buffer of pH 2 to pH 3, or a high concentration of a chaotrope, such as urea or thiocyanate ion), and GCR.P is collected.

Example 36 Identification of Molecules which Interact with 184P1E2

184P1E2, or biologically active fragments thereof, are labeled with 121 1 Bolton-Hunter reagent. (See, e.g., Bolton et al. (1973) Biochem. J. 133:529.) Candidate molecules previously arrayed in the wells of a multi-well plate are incubated with the labeled 184P1E2, washed, and any wells with labeled 184P1E2 complex are assayed. Data obtained using different concentrations of 184P1E2 are used to calculate values for the number, affinity, and association of 184P1E2 with the candidate molecules.

Example 37 In Vivo Assay for 184P1E2 Tumor Growth Promotion

The effect of the 184P1E2 protein on tumor cell growth is evaluated in vivo by evaluating tumor development and growth of cells expressing or lacking 184P1E2. For example, SCID mice are injected subcutaneously on each flank with 1×10⁶ of either 3T3, bladder or lung cancer cell lines (e.g. UM-UC3, J82, CaLu1 and A427 cells) containing tkNeo empty vector or 184P1E2. At least two strategies may be used: (1) Constitutive 184P1E2 expression under regulation of a promoter such as a constitutive promoter obtained from the genomes of viruses such as polyoma virus, fowipox virus (UK 2,211,504 published 5 Jul. 1989), adenovirus (such as Adenovirus 2), bovine papilloma virus, avian sarcoma virus, cytomegalovirus, a retrovirus, hepatitis-B virus and Simian Virus 40 (SV40), or from heterologous mammalian promoters, e.g., the actin promoter or an immunoglobulin promoter, provided such promoters are compatible with the host cell systems, and (2) Regulated expression under control of an inducible vector system, such as ecdysone, tetracycline, etc., provided such promoters are compatible with the host cell systems. Tumor volume is then monitored by caliper measurement at the appearance of palpable tumors and followed over time to determine if 184P1E2-expressing cells grow at a faster rate and whether tumors produced by 184P1E2-expressing cells demonstrate characteristics of altered aggressiveness (e.g. enhanced metastasis, vascularization, reduced responsiveness to chemotherapeutic drugs).

Additionally, mice can be implanted with 1×10⁵ of the same cells orthotopically to determine if 184P1E2 has an effect on local growth in the bladder or lung, and whether 184P1E2 affects the ability of the cells to metastasize, specifically to lymph nodes, adrenal, liver and bone (Miki T et al, Oncol Res. 2001; 12:209; Fu X et al, Int J Cancer. 1991, 49:938).

The assay is also useful to determine the 184P1E2 inhibitory effect of candidate therapeutic compositions, such as for example, 184P1E2 intrabodies, 184P1E2 antisense molecules and ribozymes.

Example 38 184P1E2 Monoclonal Antibody-mediated Inhibition of Bladder and Lung Tumors In Vivo

The significant expression of 184P1E2 in cancer tissues, together with its restrictive expression in normal tissues makes 184P1E2 a good target for antibody therapy. Similarly, 184P1E2 is a target for T cell-based immunotherapy. Thus, the therapeutic efficacy of anti-184P1E2 mAbs in human bladder cancer xenograft mouse models is evaluated by using recombinant cell lines such as UM-UC3-184P1E2, J82-184P1E2, and 3T3-184P1E2 (see, e.g., Kaighn, M. E., et al., Invest Urol, 1979. 17(1): p. 16-23). Similarly, anti-184P1E2 mAbs are evaluated in human lung cancer xenograft models using recombinant cell lines such as CaLU-184P1E2 and A427-184P1E2.

Antibody efficacy on tumor growth and metastasis formation is studied, e.g., in a mouse orthotopic bladder cancer xenograft models and mouse lung xenograft models. The antibodies can be unconjugated, as discussed in this Example, or can be conjugated to a therapeutic modality, as appreciated in the art. Anti-184P1E2 mAbs inhibit formation of both lung and bladder xenografts. Anti-184P1E2 mAbs also retard the growth of established orthotopic tumors and prolonged survival of tumor-bearing mice. These results indicate the utility of anti-184P1E2 mAbs in the treatment of local and advanced stages of lung and bladder cancer. (See, e.g., Saffran, D., et al., PNAS 10: 1073-1078).

Administration of the anti-184P1E2 mAbs led to retardation of established orthotopic tumor growth and inhibition of metastasis to distant sites, resulting in a significant prolongation in the survival of tumor-bearing mice. These studies indicate that 184P1E2 as an attractive target for immunotherapy and demonstrate the therapeutic potential of anti-184P1E2 mAbs for the treatment of local and metastatic prostate cancer. This example demonstrates that unconjugated 184P1E2 monoclonal antibodies are effective to inhibit the growth of human bladder tumor xenografts and human lung xenografts grown in SCID mice; accordingly a combination of such efficacious monoclonal antibodies is also effective.

Tumor Inhibition Using Multiple Unconjugated 184P1E2 mAbs

Materials and Methods

184P1E2 Monoclonal Antibodies:

Monoclonal antibodies are raised against 184P1E2 as described in the Example entitled “Generation of 184P1E2 Monoclonal Antibodies (mAbs).” The antibodies are characterized by ELISA, Western blot, FACS, and immunoprecipitation for their capacity to bind 184P1E2. Epitope mapping data for the anti-184P1E2 mAbs, as determined by ELISA and Western analysis, recognize epitopes on the 184P1E2 protein. Immunohistochemical analysis of prostate cancer tissues and cells with these antibodies is performed.

The monoclonal antibodies are purified from ascites or hybridoma tissue culture supernatants by Protein-G Sepharose chromatography, dialyzed against PBS, filter sterilized, and stored at −20° C. Protein determinations are performed by a Bradford assay (Bio-Rad, Hercules, Calif.). A therapeutic monoclonal antibody or a cocktail comprising a mixture of individual monoclonal antibodies is prepared and used for the treatment of mice receiving subcutaneous or orthotopic injections of UM-UC3 and CaLu1 tumor xenografts.

Cell Lines

The balder and lung carcinoma cell lines, UM-UC3, J82, CaLu1 and A427 as well as the fibroblast line NIH 3T3 (American Type Culture Collection) are maintained in DMEM supplemented with L-glutamine and 10% FBS.

A UM-UC3-184P1E2, J82-184P1E2, CaLu1-184P1E2, A427-184P1E2 and 3T3-184P1E2 cell populations are generated by retroviral gene transfer as described in Hubert, R. S., et al., Proc Natl Acad Sci USA, 1999. 96(25): 14523.

Xenograft Mouse Models.

Subcutaneous (s.c.) tumors are generated by injection of 1×10⁶ cancer cells mixed at a 1:1 dilution with Matrigel (Collaborative Research) in the right flank of male SCID mice. To test antibody efficacy on tumor formation, i.p. antibody injections are started on the same day as tumor-cell injections. As a control, mice are injected with either purified mouse IgG (ICN) or PBS; or a purified monoclonal antibody that recognizes an irrelevant antigen not expressed in human cells. In preliminary studies, no difference is found between mouse IgG or PBS on tumor growth. Tumor sizes are determined by caliper measurements, and the tumor volume is calculated as length×width×height. Mice with s.c. tumors greater than 1.5 cm in diameter are sacrificed.

Orthotopic injections are performed under anesthesia by using ketamine/xylazine. For bladder orthotopic studies, an incision is made through the abdomen to expose the bladder and tumor cells (5×10⁵) mixed with Matrigel are injected into the bladder capsule in a 10-μl volume. To monitor tumor growth, mice are palpated and blood is collected on a weekly basis to measure BTA levels. For lung orthopotic models, an incision is made through the abdominal muscles to expose the lung. Tumor cells (5×10⁵) mixed with matrigel are injected into the bronchioalveolar region of the right lung (McLemore T L et al, Cancer Res. 1988; 48:2880). To monitor tumor growth, blood is collected on a weekly basis to measure CA 125 levels. The mice are segregated into groups for the appropriate treatments, with anti-184P1E2 or control mAbs being injected i.p.

Anti-184P1E2 mAbs Inhibit Growth of 184P1E2-Expressing Xenograft-Cancer Tumors

The effect of anti-184P1E2 mAbs on tumor formation is tested by using UM-UC3 and CaLu1 orthotopic models. As compared with the s.c. tumor model, the orthotopic model, which requires injection of tumor cells directly in the mouse bladder and lung, respectively, results in a local tumor growth, development of metastasis in distal sites, deterioration of mouse health, and subsequent death (Saffran, D., et al., PNAS supra; Fu, X., et al., Int J Cancer, 1992. 52(6): p. 987-90; Kubota, T., J Cell Biochem, 1994. 56(1): p. 4-8). The features make the orthotopic model more representative of human disease progression and allowed us to follow the therapeutic effect of mAbs on clinically relevant end points.

Accordingly, tumor cells are injected into the mouse bladder or lung, and 2 days later, the mice are segregated into two groups and treated with either: a) 200-500 μg, of anti-184P1E2 Ab, or b) PBS three times per week for two to five weeks.

A major advantage of the orthotopic cancer models is the ability to study the development of metastases. Formation of metastasis in mice bearing established orthotopic tumors is studies by IHC analysis on lung sections using an antibody against a tumor-specific cell-surface protein such as anti-CK20 for bladder cancer and anti-CEA antibody for lung cancer models (Lin S et al, Cancer Detect Prev. 2001; 25:202).

Mice bearing established orthotopic tumors are administered 1000 μg injections of either anti-184P1E2 mAb or PBS over a 4-week period. Mice in both groups are allowed to establish a high tumor burden, to ensure a high frequency of metastasis formation in mouse lungs. Mice then are killed and their bladders, livers, bone and lungs are analyzed for the presence of tumor cells by IHC analysis.

These studies demonstrate a broad anti-tumor efficacy of anti-184P1E2 antibodies on initiation and progression of prostate and kidney cancer in xenograft mouse models. Anti-184P1E2 antibodies inhibit tumor formation of tumors as well as retarding the growth of already established tumors and prolong the survival of treated mice. Moreover, anti-184P1E2 mAbs demonstrate a dramatic inhibitory effect on the spread of local bladder and lung tumor to distal sites, even in the presence of a large tumor burden. Thus, anti-184P1E2 mAbs are efficacious on major clinically relevant end points (tumor growth), prolongation of survival, and health.

Example 39 Therapeutic and Diagnostic Use of Anti-184P1E2 Antibodies in Humans

Anti-184P1E2 monoclonal antibodies are safely and effectively used for diagnostic, prophylactic, prognostic and/or therapeutic purposes in humans. Western blot and immunohistochemical analysis of cancer tissues and cancer xenografts with anti-184P1E2 mAb show strong extensive staining in carcinoma but significantly lower or undetectable levels in normal tissues. Detection of 184P1E2 in carcinoma and in metastatic disease demonstrates the usefulness of the mAb as a diagnostic and/or prognostic indicator. Anti-184P1E2 antibodies are therefore used in diagnostic applications such as immunohistochemistry of kidney biopsy specimens to detect cancer from suspect patients.

As determined by flow cytometry, anti-184P1E2 mAb specifically binds to carcinoma cells. Thus, anti-184P1E2 antibodies are used in diagnostic whole body imaging applications, such as radioimmunoscintigraphy and radioimmunotherapy, (see, e.g., Potamianos S., et. al. Anticancer Res 20(2A):925-948 (2000)) for the detection of localized and metastatic cancers that exhibit expression of 184P1E2. Shedding or release of an extracellular domain of 184P1E2 into the extracellular milieu, such as that seen for alkaline phosphodiesterase B10 (Meerson, N. R., Hepatology 27:563-568 (1998)), allows diagnostic detection of 184P1E2 by anti-184P1E2 antibodies in serum and/or urine samples from suspect patients.

Anti-184P1E2 antibodies that specifically bind 184P1E2 are used in therapeutic applications for the treatment of cancers that express 184P1E2. Anti-184P1E2 antibodies are used as an unconjugated modality and as conjugated form in which the antibodies are attached to one of various therapeutic or imaging modalities well known in the art, such as a prodrugs, enzymes or radioisotopes. In preclinical studies, unconjugated and conjugated anti-184P1E2 antibodies are tested for efficacy of tumor prevention and growth inhibition in the SCID mouse cancer xenograft models, e.g., kidney cancer models AGS-K3 and AGS-K6, (see, e.g., the Example entitled “184P1E2 Monoclonal Antibody-mediated Inhibition of Bladder and Lung Tumors In Vivo”). Conjugated and unconjugated anti-184P1E2 antibodies are used as a therapeutic modality in human clinical trials either alone or in combination with other treatments as described in following Examples.

Example 40 Human Clinical Trials for the Treatment and Diagnosis of Human Carcinomas through Use of Human Anti-184P1E2 Antibodies In Vivo

Antibodies are used in accordance with the present invention which recognize an epitope on 184P1E2, and are used in the treatment of certain tumors such as those listed in Table I. Based upon a number of factors, including 184P1E2 expression levels, tumors such as those listed in Table I are presently preferred indications. In connection with each of these indications, three clinical approaches are successfully pursued.

I.) Adjunctive Therapy:

In adjunctive therapy, patients are treated with anti-184P1E2 antibodies in combination with a chemotherapeutic or antineoplastic agent and/or radiation therapy. Primary cancer targets, such as those listed in Table I, are treated under standard protocols by the addition anti-184P1E2 antibodies to standard first and second line therapy. Protocol designs address effectiveness as assessed by reduction in tumor mass as well as the ability to reduce usual doses of standard chemotherapy. These dosage reductions allow additional and/or prolonged therapy by reducing dose-related toxicity of the chemotherapeutic agent. Anti-184P1E2 antibodies are utilized in several adjunctive clinical trials in combination with the chemotherapeutic or antineoplastic agents adriamycin (advanced prostrate carcinoma), cisplatin (advanced head and neck and lung carcinomas), taxol (breast cancer), and doxorubicin (preclinical).

II.) Monotherapy:

In connection with the use of the anti-184P1E2 antibodies in monotherapy of tumors, the antibodies are administered to patients without a chemotherapeutic or antineoplastic agent. In one embodiment, monotherapy is conducted clinically in end stage cancer patients with extensive metastatic disease. Patients show some disease stabilization. Trials demonstrate an effect in refractory patients with cancerous tumors.

III.) Imaging Agent:

Through binding a radionuclide (e.g., iodine or yttrium (I¹³¹, Y⁹⁰) to anti-184P1E2 antibodies, the radiolabeled antibodies are utilized as a diagnostic and/or imaging agent. In such a role, the labeled antibodies localize to both solid tumors, as well as, metastatic lesions of cells expressing 184P1E2. In connection with the use of the anti-184P1E2 antibodies as imaging agents, the antibodies are used as an adjunct to surgical treatment of solid tumors, as both a pre-surgical screen as well as a post-operative follow-up to determine what tumor remains and/or returns. In one embodiment, a (¹¹¹In)-184P1E2 antibody is used as an imaging agent in a Phase I human clinical trial in patients having a carcinoma that expresses 184P1E2 (by analogy see, e.g., Divgi et al. J. Natl. Cancer Inst. 83:97-104 (1991)). Patients are followed with standard anterior and posterior gamma camera. The results indicate that primary lesions and metastatic lesions are identified

Dose and Route of Administration

As appreciated by those of ordinary skill in the art, dosing considerations can be determined through comparison with the analogous products that are in the clinic. Thus, anti-184P1E2 antibodies can be administered with doses in the range of 5 to 400 mg/m², with the lower doses used, e.g., in connection with safety studies. The affinity of anti-184P1E2 antibodies relative to the affinity of a known antibody for its target is one parameter used by those of skill in the art for determining analogous dose regimens. Further, anti-184P1E2 antibodies that are fully human antibodies, as compared to the chimeric antibody, have slower clearance; accordingly, dosing in patients with such fully human anti-184P1E2 antibodies can be lower, perhaps in the range of 50 to 300 mg/m², and still remain efficacious. Dosing in mg/m², as opposed to the conventional measurement of dose in mg/kg, is a measurement based on surface area and is a convenient dosing measurement that is designed to include patients of all sizes from infants to adults.

Three distinct delivery approaches are useful for delivery of anti-184P1E2 antibodies. Conventional intravenous delivery is one standard delivery technique for many tumors. However, in connection with tumors in the peritoneal cavity, such as tumors of the ovaries, biliary duct, other ducts, and the like, intraperitoneal administration may prove favorable for obtaining high dose of antibody at the tumor and to also minimize antibody clearance. In a similar manner, certain solid tumors possess vasculature that is appropriate for regional perfusion. Regional perfusion allows for a high dose of antibody at the site of a tumor and minimizes short term clearance of the antibody.

Clinical Development Plan (CDP)

Overview: The CDP follows and develops treatments of anti-184P1E2 antibodies in connection with adjunctive therapy, monotherapy, and as an imaging agent. Trials initially demonstrate safety and thereafter confirm efficacy in repeat doses. Trails are open label comparing standard chemotherapy with standard therapy plus anti-184P1E2 antibodies. As will be appreciated, one criteria that can be utilized in connection with enrollment of patients is 184P1E2 expression levels in their tumors as determined by biopsy.

As with any protein or antibody infusion-based therapeutic, safety concerns are related primarily to (i) cytokine release syndrome, i.e., hypotension, fever, shaking, chills; (ii) the development of an immunogenic response to the material (i.e., development of human antibodies by the patient to the antibody therapeutic, or HAHA response); and, (iii) toxicity to normal cells that express 184P1E2. Standard tests and follow-up are utilized to monitor each of these safety concerns. Anti-184P1E2 antibodies are found to be safe upon human administration.

Example 41 Human Clinical Trial Adjunctive Therapy with Human Anti-184P1E2 Antibody and Chemotherapeutic Agent

A phase I human clinical trial is initiated to assess the safety of six intravenous doses of a human anti-184P1E2 antibody in connection with the treatment of a solid tumor, e.g., a cancer of a tissue listed in Table I. In the study, the safety of single doses of anti-184P1E2 antibodies when utilized as an adjunctive therapy to an antineoplastic or chemotherapeutic agent, such as cisplatin, topotecan, doxorubicin, adriamycin, taxol, or the like, is assessed. The trial design includes delivery of six single doses of an anti-184P1E2 antibody with dosage of antibody escalating from approximately about 25 mg/m² to about 275 mg/m² over the course of the treatment in accordance with the following schedule:

Day 0 Day 7 Day 14 Day 21 Day 28 Day 35 mAb Dose 25 75 125 175 225 275 mg/m² mg/m² mg/m² mg/m² mg/m² mg/m² Chemotherapy + + + + + + (standard dose)

Patients are closely followed for one-week following each administration of antibody and chemotherapy. In particular, patients are assessed for the safety concerns mentioned above: (i) cytokine release syndrome, i.e., hypotension, fever, shaking, chills; (ii) the development of an immunogenic response to the material (i.e., development of human antibodies by the patient to the human antibody therapeutic, or HAHA response); and, (iii) toxicity to normal cells that express 184P1E2. Standard tests and follow-up are utilized to monitor each of these safety concerns. Patients are also assessed for clinical outcome, and particularly reduction in tumor mass as evidenced by MRI or other imaging.

The anti-184P1E2 antibodies are demonstrated to be safe and efficacious, Phase II trials confirm the efficacy and refine optimum dosing.

Example 42 Human Clinical Trial: Monotherapy with Human Anti-184P1E2 Antibody

Anti-184P1E2 antibodies are safe in connection with the above-discussed adjunctive trial, a Phase II human clinical trial confirms the efficacy and optimum dosing for monotherapy. Such trial is accomplished, and entails the same safety and outcome analyses, to the above-described adjunctive trial with the exception being that patients do not receive chemotherapy concurrently with the receipt of doses of anti-184P1E2 antibodies.

Example 43 Human Clinical Trial: Diagnostic Imaging with Anti-184P1E2 Antibody

Once again, as the adjunctive therapy discussed above is safe within the safety criteria discussed above, a human clinical trial is conducted concerning the use of anti-184P1E2 antibodies as a diagnostic imaging agent. The protocol is designed in a substantially similar manner to those described in the art, such as in Divgi et al. J. Natl. Cancer Inst. 83:97-104 (1991). The antibodies are found to be both safe and efficacious when used as a diagnostic modality.

Example 44 Homology Comparison of 184P1E2 to Known Sequences

The 184P1E2 gene is homologous to a previously cloned gene, namely human peptidylarginine deiminase type III (gi 7706447). The 184P1E2 v.1 and 184P1E2 v.2 shows 99% identity to the published peptidylarginine deiminase type III over the length of the protein (FIG. 4B and Table LIII). While 184P1E2 v.1 differs from gi 7706447 by one amino acid at position 480 (FIG. 4B), 184P1E2 v.2 differs from gi 7706447 by two amino acids at positions 304 and 480 (Table LIII). In contrast, 184P1E2 v.3 is 100% identical to the published peptidylarginine deiminase type III (See FIG. 4B and Table LIII). This indicates that 184P1E2 v.1, v.2 and v.3 represent SNPs of the same gene (see Table LIII). The homology to peptidylarginine deiminase is maintained across species, as 184P1E2 is strongly homologous to mouse and rat peptidylarginine deiminase type III (FIGS. 4C and 4D). The 184P1E2 protein consists of 664 amino acids, with calculated molecular weight of 74.7 kDa, and pI of 5.3. 184P1E2 is an intracellular protein, with localization to the mitochondria and cytosol. 184P1E2 can also localize to the nucleus. Motif analysis revealed the presence of a protein arginine deaminase motif (PAD) over the entire length of the protein, and a cadherin signature at amino acid 314-362 (Table XXI).

Protein arginine deaminases represent a family of 4 arginine deaminase isoforms, all of which catalyses the post-translational conversion of arginine to citrulline residues in a calcium dependent manner (Kanno T et al, J Inv. Dermatol 2000, 115:813). Peptidylarginine deiminase III is also known as the hai follicle type of PAD as it is primarily expressed in epidermis and hair follicles (Watanabe K et al. Biochim Biophys Acta 1988, 966:375). The conversion of arginine to citrulline by PAD has profound effects on the primary structure of target proteins and their biological function. For example, deimination of myelin basic protein enhances its susceptibility to degradation by cathepsin, a condition associated with the pathology of multiple sclerosis (Pritzker L et al, Biochemistry 2000, 39:5382). Several epidermal proteins are deiminated by peptidylarginine deiminase III, including filaggrin, trichohyalin and keratin (Senshu T et al, Biochem. Biophy. Res. Comm 1996, 225:712). Deimination of these substrates leads to their denaturation and to the eventual loss of cell integrity (Mizoguchi M et al, J. Histochem. Cytockem 1998, 46:1303). Peptidylarginine deaminase also acts as a regulator of cell proliferation and survival in some but not all tumor cells. While some tumor lines, such a acute leukemias, respond to peptidylarginine deaminase by undergoing cell arrest at G1 and/or S phases of the cell cycle and apoptosis, other cells are not affected by peptidylarginine deaminase (Gong H et al, Leukemia 2000, 14:826). In other cases, peptidylarginine deaminase provides a protective effect against apoptosis, such as in prostate cancer cells treated with taxol (Kang S et al, Mol Cell 2000, 10:331).

As mentioned above, a cadherin motif was identified at aa 316-342 of the 184P1E2 protein. Cadherins are a family of proteins that function in calcium-dependent cell adhesion. Cadherins preferentially interact with themselves, regulating cell adhesion and tight junctions (Nagafuchi A. Curr Opin Cell Biol. 2001, 13:600). Disruption of cadherin function results in unregulated cell growth and migration, often observed in cancer (Thiery J P, Chopin D. Cancer Metastasis Rev. 1999; 18:31; ). As 184P1E2 is an intracellular protein, it is unlikely to, by itself, mediate cell-cell adhesion. However, the presence of a cadherin motif suggests that 184P1E2 participate in protein-protein interactions.

The presence of a peptidylarginine deaminase motif and protein-protein interaction domain along with its localization indicate that 184P1E2 functions in regulating protein interactions and signal transduction in mammalian cells, thereby regulating cell proliferation, survival, differentiation as well as, gene expression. These biological functions have a direct effect on tumor growth and progression.

Accordingly, when 184P1E2 functions as a regulator of cell growth, tumor formation, cell signaling or as a modulator of transcription involved in activating genes associated with survival, invasion, tumorigenesis or proliferation, 184P1E2 is used for therapeutic, diagnostic, prognostic and/or preventative purposes. In addition, when a molecule, such as a variant or SNP of 184P1E2 is expressed in cancerous tissues, such as those listed in Table I, they are used for therapeutic, diagnostic, prognostic and/or preventative purposes.

Example 45 Regulation of Transcription

The localization of 184P1E2 coupled to the presence of protein interaction domains within its sequence indicate that 184P1E2 modulates the transcriptional regulation of eukaryotic genes. Regulation of gene expression is confirmed, e.g., by studying gene expression in cells expressing or lacking 184P1E2. For this purpose, two types of experiments are performed.

In the first set of experiments, RNA from parental and 184P1E2-expressing cells are extracted and hybridized to commercially available gene arrays (Clontech) (Smid-Koopman E et al. Br J Cancer. 2000. 83:246). Resting cells as well as cells treated with FBS, androgen or growth factors are compared. Differentially expressed genes are identified in accordance with procedures known in the art. The differentially expressed genes are then mapped to biological pathways (Chen K et al. Thyroid. 2001. 11:41.).

In the second set of experiments, specific transcriptional pathway activation is evaluated using commercially available (Stratagene) luciferase reporter constructs including: NFkB-luc, SRE-luc, ELK1-luc, ARE-luc, p53-luc, and CRE-luc. These transcriptional reporters contain consensus binding sites for known transcription factors that lie downstream of well-characterized signal transduction pathways, and represent a good tool to ascertain pathway activation and screen for positive and negative modulators of pathway activation.

Thus, 184P1E2 plays a role in gene regulation, and it is used as a target for diagnostic, prognostic, preventative and/or therapeutic purposes.

Example 46 Identification and Confirmation of Potential Signal Transduction Pathways

Many mammalian proteins have been reported to interact with signaling molecules and to participate in regulating signaling pathways. (J Neurochem. 2001; 76:217-223). Cadherins in particular have been associated with the β-catenin signaling cascade that control cell transformation and invasion (Gottardi C J et al, J Cell Biol. 2001, 153:1049). Based on the presence of a cadherin motif 184P1E2 regulates signaling pathways important for cell growth and invasion. In addition, the 184P1E2 protein contains several phosphorylation sites (see Table XX) indicating an association with specific signaling cascades. Using immunoprecipitation and Western blotting techniques, proteins are identified that associate with 184P1E2 and mediate signaling events. Several pathways known to play a role in cancer biology can be regulated by 184P1E2, including phospholipid pathways such as PI3K, AKT, etc, adhesion and migration pathways, including FAK, Rho, Rac-1, β-catenin, etc, as well as mitogenic/survival cascades such as ERK, p38, etc (Cell Growth Differ. 2000, 11:279; J Biol Chem. 1999, 274:801; Oncogene. 2000, 19:3003, J. Cell Biol. 1997, 138:913.).

To confirm that 184P1E2 directly or indirectly activates known signal transduction pathways in cells, luciferase (luc) based transcriptional reporter assays are carried out in cells expressing individual genes. These transcriptional reporters contain consensus-binding sites for known transcription factors that lie downstream of well-characterized signal transduction pathways. The reporters and examples of these associated transcription factors, signal transduction pathways, and activation stimuli are listed below.

-   -   1. NFkB-luc, NFkB/Rel; Ik-kinase/SAPK; growth/apoptosis/stress     -   2. SRE-luc, SRF/TCF/ELK1; MAPK/SAPK; growth/differentiation     -   3. AP-1-luc, FOS/JUN; MAPK/SAPK/PKC; growth/apoptosis/stress     -   4. RE-luc, androgen receptor; steroids/MAPK;         growth/differentiation/apoptosis     -   5. p53-luc, p53; SAPK; growth/differentiation/apoptosis     -   6. CRE-luc, CREB/ATF2; PKA/p38; growth/apoptosis/stress     -   7. TCF-luc, TCF/Lef; β-catenin, Adhesion/invasion

Gene-mediated effects can be assayed in cells showing mRNA expression. Luciferase reporter plasmids can be introduced by lipid-mediated transfection (TFX-50, Promega). Luciferase activity, an indicator of relative transcriptional activity, is measured by incubation of cell extracts with luciferin substrate and luminescence of the reaction is monitored in a luminometer.

Signaling pathways activated by 184P1E2 are mapped and used for the identification and validation of therapeutic targets. When 184P1E2 is involved in cell signaling, it is used as target for diagnostic, prognostic, preventative and/or therapeutic purposes.

Example 47 Involvement in Tumor Progression

Based on the documented role of peptidylarginine deiminase in cell growth, proliferation and survival (Kang S et al, Mol Cell 2000, 10:331), the 184P1E2 gene can contribute to the growth of cancer cells. The role of 184P1E2 in tumor growth is confirmed in a variety of primary and transfected cell lines including bladder and lung cell lines, as well as NIH 3T3 cells engineered to stably express 184P1E2. Parental cells lacking 184P1E2 and cells expressing 184P1E2 are evaluated for cell growth using a well-documented proliferation assay (Fraser S P, Grimes J A, Djamgoz M B. Prostate. 2000; 44:61, Johnson D E, Ochieng J, Evans S L. Anticancer Drugs. 1996, 7:288).

To confirm the role of 184P1E2 in the transformation process, its effect in colony forming assays is investigated. Parental NIH-3T3 cells lacking 184P1E2 are compared to NIH-3T3 cells expressing 184P1E2, using a soft agar assay under stringent and more permissive conditions (Song Z. et al. Cancer Res. 2000; 60:6730).

To confirm the role of 184P1E2 in invasion and metastasis of cancer cells, a well-established assay is used, e.g., a Transwell Insert System assay (Becton Dickinson) (Cancer Res. 1999; 59:6010). Control cells, including prostate, breast and kidney cell lines lacking 184P1E2 are compared to cells expressing 184P1E2. Cells are loaded with the fluorescent dye, calcein, and plated in the top well of the Transwell insert coated with a basement membrane analog. Invasion is determined by fluorescence of cells in the lower chamber relative to the fluorescence of the entire cell population.

184P1E2 can also play a role in cell cycle and apoptosis. Parental cells and cells expressing 184P1E2 are compared for differences in cell cycle regulation using a well-established BrdU assay (Abdel-Malek Z A. J Cell Physiol. 1988, 136:247). In short, cells are grown under both optimal (full serum) and limiting (low serum) conditions are labeled with BrdU and stained with anti-BrdU Ab and propidium iodide. Cells are analyzed for entry into the G1, S, and G2M phases of the cell cycle. Alternatively, the effect of stress on apoptosis is evaluated in control parental cells and cells expressing 184P1E2, including normal and tumor bladder and lung cells. Engineered and parental cells are treated with various chemotherapeutic agents, such as etoposide, taxol, etc, and protein synthesis inhibitors, such as cycloheximide. Cells are stained with annexin V-FITC and cell death is measured by FACS analysis. The modulation of cell death by 184P1E2 can play a critical role in regulating tumor progression and tumor load.

When 184P1E2 plays a role in cell growth, transformation, invasion or apoptosis, it is used as a target for diagnostic, prognostic, preventative and/or therapeutic purposes.

Example 48 Involvement in Angiogenesis

Angiogenesis or new capillary blood vessel formation is necessary for tumor growth (Hanahan D, Folkman J. Cell. 1996, 86:353; Folkman J. Endocrinology. 1998 139:441). Based on the effect of phsophodieseterase inhibitors on endothelial cells, 184P1E2 plays a role in angiogenesis (DeFouw L et al, Microvasc Res 2001, 62:263). Several assays have been developed to measure angiogenesis in vitro and in vivo, such as the tissue culture assays endothelial cell tube formation and endothelial cell proliferation. Using these assays as well as in vitro neo-vascularization, the role of 184P1E2 in angiogenesis, enhancement or inhibition, is confirmed.

For example, endothelial cells engineered to express 184P1E2 are evaluated using tube formation and proliferation assays. The effect of 184P1E2 is also confirmed in animal models in vivo. For example, cells either expressing or lacking 184P1E2 are implanted subcutaneously in immunocompromised mice. Endothelial cell migration and angiogenesis are evaluated 5-15 days later using immunohistochemistry techniques. 184P1E2 affects angiogenesis, and it is used as a target for diagnostic, prognostic, preventative and/or therapeutic purposes

Example 49 Involvement in Protein-Protein Interactions

Cadherin motifs have been shown to mediate interaction with other proteins, specially similar cadherin proteins, thereby regulating cell adhesion and growth (Cavallaro U et al, Cancer Lett. 2002, 176:123; Kovacs E M et al., Curr Biol. 2002, 12:379). Using immunoprecipitation techniques as well as two yeast hybrid systems, proteins are identified that associate with 184P1E2. Immunoprecipitates from cells expressing 184P1E2 and cells lacking 184P1E2 are compared for specific protein-protein associations.

Studies are performed to confirm the extent of association of 184P1E2 with effector molecules, such as nuclear proteins, transcription factors, kinases, phsophates etc. Studies comparing 184P1E2 positive and 184P1E2 negative cells as well as studies comparing unstimulated/resting cells and cells treated with epithelial cell activators, such as cytokines, growth factors, androgen and anti-integrin Ab reveal unique interactions.

In addition, protein-protein interactions are confirmed using two yeast hybrid methodology (Curr Opin Chem Biol. 1999, 3:64). A vector carrying a library of proteins fused to the activation domain of a transcription factor is introduced into yeast expressing a 184P1E2-DNA-binding domain fusion protein and a reporter construct. Protein-protein interaction is detected by colorimetric reporter activity. Specific association with effector molecules and transcription factors directs one of skill to the mode of action of 184P1E2, and thus identifies therapeutic, prognostic, preventative and/or diagnostic targets for cancer. This and similar assays are also used to identify and screen for small molecules that interact with 184P1E2.

Thus it is found that 184P1E2 associates with proteins and small molecules. Accordingly, 184P1E2 and these proteins and small molecules are used for diagnostic, prognostic, preventative and/or therapeutic purposes.

Example 50 Involvement in Deimination

As previously mentioned, petidylarginine deiminases convert protein-bound arginine to citrulline, thereby altering the structure and function of target proteins (Kanno T et al, J Inv. Dermatol 2000, 115:813). The petidylarginine deiminases of 184P1E2 will be confirmed in recombinant cell lines as well as primary bladder and lung tumor cells. Cells expressing 184P1E2 and control cells lacking 184P1E2 are grown on sterile glass coverslips, and fixed in paraformaldehyde. Citrulline residues located in cellular proteins are chemically altered for better recognition using potassium ferricyanide. Citrulline residues are detected using a citrulline-specific antibody by immunofluorescence.

When 184P1E2 functions as a deiminase, it is used as a target for diagnostic, prognostic, preventative and therapeutic purposes.

Throughout this application, various website data content, publications, patent applications and patents are referenced. (Websites are referenced by their Uniform Resource Locator, or URL, addresses on the World Wide Web.) The disclosures of each of these references are hereby incorporated by reference herein in their entireties.

The present invention is not to be limited in scope by the embodiments disclosed herein, which are intended as single illustrations of individual aspects of the invention, and any that are functionally equivalent are within the scope of the invention. Various modifications to the models and methods of the invention, in addition to those described herein, will become apparent to those skilled in the art from the foregoing description and teachings, and are similarly intended to fall within the scope of the invention. Such modifications or other embodiments can be practiced without departing from the true scope and spirit of the invention.

TABLE I Tissues that Express 184P1E2 When Malignant Bladder Kidney Lung

TABLE II Amino Acid Abbreviations SINGLE LETTER THREE LETTER FULL NAME F Phe phenylalanine L Leu leucine S Ser serine Y Tyr tyrosine C Cys cysteine W Trp tryptophan P Pro proline H His histidine Q Gln glutamine R Arg arginine I Ile isoleucine M Met methionine T Thr threonine N Asn asparagine K Lys lysine V Val valine A Ala alanine D Asp aspartic acid E Glu glutamic acid G Gly glycine

TABLE III Amino Acid Substitution Matrix Adapted from the GCG Software 9.0 BLOSUM62 amino acid substitution matrix (block substitution matrix). The higher the value, the more likely a substitution is found in related, natural proteins. A C D E F G H I K L M N P Q R S T V W Y . 4 0 −2 −1 −2 0 −2 −1 −1 −1 −1 −2 −1 −1 −1 1 0 0 −3 −2 A 9 −3 −4 −2 −3 −3 −1 −3 −1 −1 −3 −3 −3 −3 −1 −1 −1 −2 −2 C 6 2 −3 −1 −1 −3 −1 −4 −3 1 −1 0 −2 0 −1 −3 −4 −3 D 5 −3 −2 0 −3 1 −3 −2 0 −1 2 0 0 −1 −2 −3 −2 E 6 −3 −1 0 −3 0 0 −3 −4 −3 −3 −2 −2 −1 1 3 F 6 −2 −4 −2 −4 −3 0 −2 −2 −2 0 −2 −3 −2 −3 G 8 −3 −1 −3 −2 1 −2 0 0 −1 −2 −3 −2 2 H 4 −3 2 1 −3 −3 −3 −3 −2 −1 3 −3 −1 I 5 −2 −1 0 −1 1 2 0 −1 −2 −3 −2 K 4 2 −3 −3 −2 −2 −2 −1 1 −2 −1 L 5 −2 −2 0 −1 −1 −1 1 −1 −1 M 6 −2 0 0 1 0 −3 −4 −2 N 7 −1 −2 −1 −1 −2 −4 −3 P 5 1 0 −1 −2 −2 −1 Q 5 −1 −1 −3 −3 −2 R 4 1 −2 −3 −2 S 5 0 −2 −2 T 4 −3 −1 V 11 2 W 7 Y

TABLE IV HLA Class I/II Motifs/Supermotifs TABLE IV (A): HLA Class I Supermotifs/Motifs POSITION POSITION POSITION 3 (Primary C Terminus 2 (Primary Anchor) Anchor) (Primary Anchor) SUPERMOTIFS A1 TILVMS FWY A2 LIVMATQ IVMATL A3 VSMATLI RK A24 YFWIVLMT FIYWLM B7 P VILF MWYA B27 RHK FYLWMIVA B44 E D FWYLIMVA B58 ATS FWYLIVMA B62 QLIVMP FWYMIVLA MOTIFS A1 TSM Y A1 DE AS Y A2.1 LMVQIAT VLIMAT A3 LMVISATFCGD KYR HFA A11 VTMLISAGNCDF KRYH A24 YFWM FLIW A*3101 MVTALIS R K A*3301 MVALFIST RK A*6801 AVTMSLI RK B*0702 P LMFWYAIV B*3501 P LMFWYIVA B51 P LIVF WYAM B*5301 P IMFWYALV B*5401 P ATIVLMFWY

Bolded residues are preferred, italicized residues are less preferred: A peptide is considered motif-bearing if it has primary anchors at each primary anchor position for a motif or supermotif as specified in the above table.

TABLE IV(B) HLA Class II Supermotif 1 6 9 W, F, Y, V, .I, L A, V, I, L, P, C, S, T A, V, I, L, C, S, T, M, Y

TABLE IV (C) HLA Class II Motifs MOTIFS 1° anchor 1 2 3 4 5 1° anchor 6 7 8 9 DR4 preferred FMYLIVW M T I VSTCPALIM MH MH deleterious W R WDE DR1 preferred MFLIVWY PAMQ VMATSPLIC M AVM deleterious C CH FD CWD GDE D DR7 preferred MFLIVWY M W A IVMSACTPL M IV deleterious C G GRD N G DR3 MOTIFS 1° anchor 1 2 3 1° anchor 4 5 1° anchor 6 motif a LIVMFY D preferred motif b LIVMFAY DNQEST KRH preferred DR MFLIVWY VMSTACPLI Supermotif Italicized residues indicate less preferred or “tolerated” residues

TABLE IV (D) HLA Class I Supermotifs SUPER- POSITION: MOTIFS 1 2 3 4 5 6 7 8 C-terminus A1 1° Anchor 1° Anchor TILVMS FWY A2 1° Anchor 1° Anchor LIVMATQ LIVMAT A3 preferred 1° Anchor YFW YFW YFW P 1° Anchor VSMATLI (4/5) (3/5) (4/5) (4/5) RK deleterious DE (3/5); DE P (5/5) (4/5) A24 1° Anchor 1° Anchor YFWIVLMT FIYWLM B7 preferred FWY (5/5) 1° Anchor FWY FWY 1° Anchor LIVM (3/5) P (4/5) (3/5) VILFMWYA deleterious DE (3/5); DE G QN DE P (5/5); G (4/5); (3/5) (4/5) (4/5) (4/5) A(3/5); QN(3/5) B27 1° Anchor 1° Anchor RIHK FYLWMIVA B44 1° Anchor 1° Anchor ED FWYLIMVA B58 1° Anchor 1° Anchor ATS FWYLIVMA B62 1° Anchor 1° Anchor QLIVMP FWYMIVLA Italicized residues indicate less preferred or “tolerated” residues

TABLE IV (E) HLA Class I Motifs POSITION: 1 2 3 4 5 A1 preferred GFYW 1° Anchor DEA YFW 9-mer STM deleterious DE RHKLIVMP A G A1 preferred GRHK ASTCLIVM 1° Anchor GSTC 9-mer DEAS deleterious A RHKDEPYFW DE PQN A1 preferred YFW 1° Anchor DEAQN A YFWQN 10-mer STM deleterious GP RHKGLIVM DE RHK A1 preferred YFW STCLIVM 1° Anchor A YFW 10-mer DEAS deleterious RHK RHKDEPYFW P A2.1 preferred YFW 1° Anchor YFW STC YFW 9-mer LMIVQAT deleterious DEP DERKH A2.1 preferred AYFW 1° Anchor LVIM G 10-mer LMIVQAT deleterious DEP DE RKHA P A3 preferred RHK 1° Anchor YFW PRHKYFW A LMVISAT FCGD deleterious DEP DE A11 preferred A 1° Anchor YFW YFW A VTLMISA GNCDF deleterious DEP A24 preferred YFWRHK 1° Anchor STC 9-mer YFWM deleterious DEG DE G QNP A24 preferred 1° Anchor P YFWP 10-mer YFWM deleterious GDE QN RHK A3101 preferred RHK 1° Anchor YFW P MVTALIS deleterious DEP DE ADE A3301 preferred 1° Anchor YFW MVALFIST deleterious GP DE A6801 preferred YFWSTC 1° Anchor YFWLIVM AVTMSLI deleterious GP DEG RHK B0702 preferred RHKFWY 1° Anchor RHK RHK P deleterious DEQNP DEP DE DE B3501 preferred FWYLIVM 1° Anchor FWY P deleterious AGP G B51 preferred LIVMFWY 1° Anchor FWY STC FWY P deleterious AGPDER DE HKSTC B5301 preferred LIVMFWY 1° Anchor FWY STC FWY P deleterious AGPQN B5401 preferred FWY 1° Anchor FWYLIVM LIVM P deleterious GPQNDE GDESTC RHKDE POSITION: 6 7 8 9 C-terminus A1 preferred P DEQN YFW or C-terminus 9-mer 1° Anchor Y deleterious A A1 preferred ASTC LIVM DE 1° Anchor 9-mer Y deleterious RHK PG GP A1 preferred PASTC GDE P 1° Anchor 10-mer Y deleterious QNA RHKYFW RHK A A1 preferred PG G YFW 1° Anchor 10-mer Y deleterious G PRHK QN A2.1 preferred A P 1° Anchor 9-mer VLIMAT deleterious RKH DERKH A2.1 preferred G FYWL 1° Anchor 10-mer VIM VLIMAT deleterious RKH DERKH RKH A3 preferred YFW P 1° Anchor KYRHFA deleterious A11 preferred YFW YFW P 1° Anchor KRYH deleterious A G A24 preferred YFW YFW 1° Anchor 9-mer FLIW deleterious DERHK G AQN A24 preferred P 1° Anchor 10-mer FLIW deleterious DE A QN DEA A3101 preferred YFW YFW AP 1° Anchor RK deleterious DE DE DE A3301 preferred AYFW 1° Anchor RK deleterious A6801 preferred YFW P 1° Anchor RK deleterious A B0702 preferred RHK RHK PA 1° Anchor LMFWYAIV deleterious GDE QN DE B3501 preferred FWY 1° Anchor LMFWYIVA deleterious G B51 preferred G FWY 1° Anchor LIVFWYAM deleterious G DEQN GDE B5301 preferred LIVMFWY FWY 1° Anchor IMFWYALV deleterious G RHKQN DE B5401 preferred ALIVM FWYAP 1° Anchor ATIVLMFWY deleterious DE QNDGE DE Italicized residues indicate less preferred or “tolerated” residues. The information in this Table is specific for 9-mers unless otherwise specified.

TABLE V Pos 123456789 Score SeqID v.1-A1-9-mers: 184P1E2 99 SHEPLPLAY 112.500 46 373 NGELQDFPY 56.250 47 566 IIDIPQLFK 50.000 48 620 LLEPLGLHC 45.000 49 22 GVETLVDIY 45.000 50 348 IQDEMELGY 18.750 51 301 STLPPLEVY 12.500 52 218 GPEDVCEAY 11.250 53 285 FTDTVVFRV 6.250 54 120 DCDLNCEGR 5.000 55 271 LLDDSNEDF 5.000 56 62 RADTRRWRF 5.000 57 561 LAECDIIDI 4.500 58 36 GTEMFEVYG 4.500 59 563 ECDIIDIPQ 2.500 60 383 RILGPDFGY 2.500 61 386 GPDFGYVTR 2.500 62 490 LASPGACFK 2.000 63 73 TLEIIVVMN 1.800 64 409 NLEVSPPVV 1.800 65 176 DLEDMSVMV 1.800 66 43 YGTPGVDIY 1.250 67 362 KTLPVVFDS 1.250 68 517 VVDDEQVKT 1.000 69 454 KVQPPVELF 1.000 70 587 LVNMLVLGK 1.000 71 462 FVDWLAVGH 1.000 72 335 TICPQAENR 1.000 73 446 VRDFLHAQK 1.000 74 630 FIDDFTPYH 1.000 75 229 VLGQDKVSY 1.000 76 534 NKDLINYNK 1.000 77 612 CLEEKVRSL 0.900 78 222 VCEAYRHVL 0.900 79 351 EMELGYVQA 0.900 80 339 QAENRNDRW 0.900 81 323 VAELARKAG 0.900 82 10 SLEHPTSAV 0.900 83 124 NCEGRQDRN 0.900 84 243 HGDEERFFV 0.625 85 480 APDGKGFRM 0.625 86 584 FPDLVNMLV 0.625 87 198 KLVLHTSSY 0.500 88 319 FVDAVAELA 0.500 89 470 HVDEFLSFV 0.500 90 186 RTQGPAALF 0.500 91 47 GVDIYISPN 0.500 92 547 CIDWNREVL 0.500 93 166 NCDQHVHCL 0.500 94 202 HTSSYDAKR 0.500 95 574 KTERKKATA 0.450 96 393 TREPRDRSV 0.450 97 250 FVEGLSFPD 0.450 98 321 DAVAELARK 0.400 99 532 LSNKDLINY 0.375 100 174 LQDLEDMSV 0.375 101 412 VSPPVVANG 0.300 102 128 RQDRNFVDK 0.300 103 432 GNLPGSSGR 0.250 104 647 GTNVCRKPF 0.250 105 103 LPLAYAVLY 0.250 106 156 RDDPSCDVQ 0.250 107 478 VPAPDGKGF 0.250 108 641 HGEVHCGTN 0.225 109 236 SYEVPRLHG 0.225 110 253 GLSFPDAGF 0.200 111 302 TLPPLEVYV 0.200 112 645 HCGTNVCRK 0.200 113 411 EVSPPVVAN 0.200 114 527 SINQVLSNK 0.200 115 516 GVVDDEQVK 0.200 116 489 LLASPGACF 0.200 117 375 ELQDFPYKR 0.200 118 399 RSVSGLDSF 0.150 119 254 LSFPDAGFT 0.150 120 52 ISPNMERGR 0.150 121 31 GSVPEGTEM 0.150 122 261 FTGLISFHV 0.125 123 506 CGHGRALLF 0.125 124 634 FTPYHMLHG 0.125 125 259 AGFTGLISF 0.125 126 35 EGTEMFEVY 0.125 127 44 GTPGVDIYI 0.125 128 88 NDSHVQISY 0.125 129 256 FPDAGFTGL 0.125 130 177 LEDMSVMVL 0.125 131 84 SNDLNDSHV 0.125 132 193 LFDDHKLVL 0.125 133 87 LNDSHVQIS 0.125 134 33 VPEGTEMFE 0.113 135 433 NLPGSSGRR 0.100 136 610 CCCLEEKVR 0.100 137 51 YISPNMERG 0.100 138 354 LGYVQAPHK 0.100 139 466 LAVGHVDEF 0.100 140 241 RLHGDEERF 0.100 141 32 SVPEGTEMF 0.100 142 384 ILGPDFGYV 0.100 143 565 DIIDIPQLF 0.100 144 153 NCDRDDPSC 0.100 145 v.2-A1-9mers: 184P1E2 6 STLAPLEVY 1.250 146 7 TLAPLEVYV 0.200 147 9 APLEVYVCR 0.050 148 3 MTPSTLAPL 0.050 149 2 IMTPSTLAP 0.025 150 8 LAPLEVYVC 0.020 151 1 WIMTPSTLA 0.010 152 5 PSTLAPLEV 0.008 153 4 TPSTLAPLE 0.001 154 v.3-A1-9mers: 184P1E2 9 VPDGKGFRM 0.625 155 7 VPVPDGKGF 0.250 156 5 SFVPVPDGK 0.100 157 4 LSFVPVPDG 0.030 158 8 PVPDGKGFR 0.010 159 6 FVPVPDGKG 0.010 160 3 FLSFVPVPD 0.002 161 1 DEFLSFVPV 0.001 162 2 EFLSFVPVP 0.000 163

TABLE VI Pos 1234567890 Score SeqID v.1-A1-10mers: 184P1E2 87 LNDSHVQISY 31.250 164 319 FVDAVAELAR 25.000 165 547 CIDWNREVLK 20.000 166 373 NGELQDFPYK 9.000 167 124 NCEGRQDRNF 9.000 168 620 LLEPLGLHCT 9.000 169 218 GPEDVCEAYR 4.500 170 22 GVETLVDIYG 4.500 171 36 GTEMFEVYGT 4.500 172 73 TLEIIVVMNS 4.500 173 176 DLEDMSVMVL 4.500 174 98 SSHEPLPLAY 3.750 175 412 VSPPVVANGK 3.000 176 403 GLDSFGNLEV 2.500 177 347 WIQDEMELGY 2.500 178 566 IIDIPQLFKT 2.500 179 531 VLSNKDLINY 2.500 180 574 KTERKKATAF 2.250 181 10 SLEHPTSAVC 1.800 182 409 NLEVSPPVVA 1.800 183 250 FVEGLSFPDA 1.800 184 222 VCEAYRHVLG 1.800 185 323 VAELARKAGC 1.800 186 31 GSVPEGTEMF 1.500 187 628 CTFIDDFTPY 1.250 188 285 FTDTVVFRVA 1.250 189 33 VPEGTEMFEV 1.125 190 47 GVDIYISPNM 1.000 191 228 HVLGQDKVSY 1.000 192 565 DIIDIPQLFK 1.000 193 630 FIDDFTPYHM 1.000 194 586 DLVNMLVLGK 1.000 195 51 YISPNMERGR 1.000 196 563 ECDIIDIPQL 1.000 197 339 QAENRNDRWI 0.900 198 305 PLEVYVCRVR 0.900 199 99 SHEPLPLAYA 0.900 200 612 CLEEKVRSLL 0.900 201 254 LSFPDAGFTG 0.750 202 584 FPDLVNMLVL 0.625 203 372 RNGELQDFPY 0.625 204 490 LASPGACFKL 0.500 205 454 KVQPPVELFV 0.500 206 505 KCGHGRALLF 0.500 207 276 NEDFSASPIF 0.500 208 166 NCDQHVHCLQ 0.500 209 120 DCDLNCEGRQ 0.500 210 462 FVDWLAVGHV 0.500 211 517 VVDDEQVKTI 0.500 212 118 SLDCDLNCEG 0.500 213 114 CVDISLDCDL 0.500 214 160 SCDVQDNCDQ 0.500 215 49 DIYISPNMER 0.500 216 258 DAGFTGLISF 0.500 217 271 LLDDSNEDFS 0.500 218 301 STLPPLEVYV 0.500 219 177 LEDMSVMVLR 0.500 220 393 TREPRDRSVS 0.450 221 353 ELGYVQAPHK 0.400 222 526 ISINQVLSNK 0.300 223 475 LSFVPAPDGK 0.300 224 470 HVDEFLSFVP 0.250 225 534 NKDLINYNKF 0.250 226 334 LTICPQAENR 0.250 227 205 SYDAKRAQVF 0.250 228 478 VPAPDGKGFR 0.250 229 432 GNLPGSSGRR 0.250 230 641 HGEVHCGTNV 0.225 231 519 DDEQVKTISI 0.225 232 275 SNEDESASPI 0.225 233 489 LLASPGACFK 0.200 234 488 MLLASPGACF 0.200 235 494 GACFKLFQEK 0.200 236 643 EVHCGTNVCR 0.200 237 302 TLPPLEVYVC 0.200 238 384 ILGPDFGYVT 0.200 239 411 EVSPPVVANG 0.200 240 200 VLHTSSYDAK 0.200 241 491 ASPGACFKLF 0.150 242 112 LTCVDISLDC 0.125 243 21 AGVETLVDIY 0.125 244 580 ATAFFPDLVN 0.125 245 272 LDDSNEDFSA 0.125 246 256 FPDAGFTGLI 0.125 247 468 VGHVDEFLSF 0.125 248 194 FDDHKLVLHT 0.125 249 69 RFDATLEIIV 0.125 250 43 YGTPGVDIYI 0.125 251 442 VTQVVRDFLH 0.125 252 84 SNDLNDSHVQ 0.125 253 382 KRILGPDFGY 0.125 254 480 APDGKGFRML 0.125 255 217 CGPEDVCEAY 0.125 256 648 TNVCRKPFSF 0.125 257 609 GCCCLEEKVR 0.100 258 625 GLHCTFIDDF 0.100 259 335 TICPQAENRN 0.100 260 280 SASPIFTDTV 0.100 261 241 RLHGDEERFF 0.100 262 122 DLNCEGRQDR 0.100 263 v.2-A1-10mers: 184P1E2 9 LAPLEVYVCR 0.200 264 8 TLAPLEVYVC 0.200 265 3 IMTPSTLAPL 0.100 266 6 PSTLAPLEVY 0.075 267 7 STLAPLEVYV 0.050 268 5 TPSTLAPLEV 0.013 269 4 MTPSTLAPLE 0.005 270 2 WIMTPSTLAP 0.005 271 10 APLEVYVCRV 0.003 272 1 PWIMTPSTLA 0.000 273 v.3-A1-10mers: 184P1E2 5 LSFVPVPDGK 0.300 274 8 VPVPDGKGFR 0.250 275 10 VPDGKGFRML 0.125 276 7 FVPVPDGKGF 0.100 277 1 VDEFLSFVPV 0.090 278 4 FLSFVPVPDG 0.020 279 6 SFVPVPDGKG 0.005 280 9 PVPDGKGFRN 0.005 281 2 DEFLSFVPVP 0.000 282 3 EFLSFVPVPD 0.000 283

TABLE VII Pos 123456789 Score SeqID v.1-A2-9mers: 184P1E2 192 ALFDDHKLV 1055.104 284 302 TLPPLEVYV 382.536 285 384 ILGPDFGYV 160.627 286 111 YLTCVDISL 98.267 287 263 GLISFHVTL 81.177 288 455 VQPPVELFV 65.934 289 498 KLFQEKQKC 64.336 290 589 NMLVLGKHL 57.085 291 109 VLYLTCVDI 56.754 292 25 TLVDIYGSV 55.607 293 460 ELFVDWLAV 32.811 294 289 VVFRVAPWI 31.581 295 536 DLINYNKFV 28.690 296 79 VMNSPSNDL 26.228 297 261 FTGLISFHV 25.773 298 285 FTDTVVFRV 23.711 299 470 HVDEFLSFV 16.312 300 234 KVSYEVPRL 15.047 301 487 RMLLASPGA 13.276 302 655 FSFKWWNMV 13.137 303 264 LISFHVTLL 11.485 304 107 YAVLYLTCV 10.220 305 356 YVQAPHKTL 8.598 306 200 VLHTSSYDA 8.446 307 579 KATAFFPDL 7.498 308 408 GNLEVSPPV 6.887 309 1 MSLQRIVRV 6.568 310 40 FEVYGTPGV 6.221 311 19 CVAGVETLV 6.086 312 104 PLAYAVLYL 5.945 313 591 LVLGKHLGI 5.742 314 467 AVGHVDEFL 5.038 315 163 VQDNCDQHV 4.795 316 174 LQDLEDMSV 4.795 317 459 VELFVDWLA 4.557 318 10 SLEHPTSAV 4.451 319 488 MLLASPGAC 4.062 320 144 SGYGGILLV 3.342 321 86 DLNDSHVQI 3.208 322 309 YVCRVRNNT 2.999 323 231 GQDKVSYEV 2.821 324 612 CLEEKVRSL 2.579 325 312 RVRNNTCFV 2.544 326 529 NQVLSNKDL 2.166 327 315 NNTCFVDAV 1.944 328 409 NLEVSPPVV 1.825 329 517 VVDDEQVKT 1.818 330 580 ATAFFPDLV 1.799 331 530 QVLSNKDLI 1.655 332 630 FIDDFTPYH 1.616 333 176 DLEDMSVMV 1.369 334 442 VTQVVRDFL 1.359 335 642 GEVHCGTNV 1.352 336 105 LAYAVLYLT 1.295 337 623 PLGLHCTFI 1.262 338 37 TEMFEVYGT 1.233 339 298 MTPSTLPPL 1.160 340 191 AALFDDHKL 1.098 341 132 NFVDKRQWV 1.089 342 376 LQDFPYKRI 1.079 343 437 SSGRRVTQV 1.044 344 15 TSAVCVAGV 1.044 345 653 KPFSFKWWN 0.987 346 72 ATLEIIVVM 0.987 347 358 QAPHKTLPV 0.966 348 179 DMSVMVLRT 0.928 349 281 ASPIFTDTV 0.845 350 9 VSLEHPTSA 0.836 351 117 ISLDCDLNC 0.836 352 584 FPDLVNMLV 0.835 353 444 QVVRDFLHA 0.826 354 491 ASPGACFKL 0.809 355 243 HGDEERFFV 0.808 356 44 GTPGVDIYI 0.797 357 558 ELGLAECDI 0.782 358 510 RALLFQGVV 0.724 359 17 AVCVAGVET 0.652 360 583 FFPDLVNML 0.644 361 21 AGVETLVDI 0.642 362 184 VLRTQGPAA 0.642 363 621 LEPLGLHCT 0.567 364 221 DVCEAYRHV 0.561 365 616 KVRSLLEPL 0.560 366 620 LLEPLGLHC 0.541 367 385 LGPDFGYVT 0.528 368 402 SGLDSFGNL 0.523 369 553 EVLKRELGL 0.519 370 618 RSLLEPLGL 0.516 371 417 VANGKEYPL 0.504 372 505 KCGHGRALL 0.488 373 256 FPDAGFTGL 0.488 374 638 HMLHGEVHC 0.451 375 359 APHKTLPVV 0.428 376 524 KTISINQVL 0.426 377 463 VDWLAVGHV 0.408 378 294 APWIMTPST 0.404 379 34 PEGTEMFEV 0.397 380 319 FVDAVAELA 0.392 381 421 KEYPLGRIL 0.381 382 523 VKTISINQV 0.378 383 v.2-A2-9mers: 184P1E2 7 TLAPLEVYV 382.536 384 1 WIMTPSTLA 11.626 385 3 MTPSTLAPL 1.160 386 8 LAPLEVYVC 0.111 387 2 IMTPSTLAP 0.018 388 5 PSTLAPLEV 0.010 389 9 APLEVYVCR 0.002 390 6 STLAPLEVY 0.002 391 4 TPSTLAPLE 0.000 392 v.3-A2-9mers: 184P1E2 1 DEFLSFVPV 0.713 393 9 VPDGKGFRM 0.128 394 3 FLSFVPVPD 0.069 395 4 LSFVPVPDG 0.007 396 6 FVRVPDGKG 0.004 397 7 VPVPDGKGF 0.001 398 8 PVPDGKGFR 0.000 399 2 EFLSFVPVP 0.000 400 5 SFVPVPDGK 0.000 401

TABLE VIII Pos 1234567890 Score SeqID v.1-A2-10mers: 184P1E2 173 CLQDLEDMSV 285.163 402 192 ALFDDHKLVL 132.868 403 454 KVQPPVELFV 117.152 404 560 GLAECDIIDI 98.381 405 619 SLLEPLGLHC 75.365 406 297 IMTPSTLPPL 60.325 407 263 GLISFHVTLL 49.134 408 383 RILGPDFGYV 48.070 409 348 IQDEMELGYV 32.332 410 403 GLDSFGNLEV 27.821 411 2 SLQRIVRVSL 21.362 412 384 ILGPDFGYVT 19.737 413 301 STLPPLEVYV 19.658 414 571 QLFKTERKKA 18.382 415 590 MLVLGKHLGI 17.736 416 514 FQGVVDDEQV 15.895 417 459 VELFVDWLAV 14.461 418 433 NLPGSSGRRV 13.910 419 639 MLHGEVHCGT 12.668 420 357 VQAPHKTLPV 11.988 421 78 VVMNSPSNDL 11.757 422 9 VSLEHPTSAV 11.709 423 103 LPLAYAVLYL 11.096 424 242 LHGDEERFFV 10.739 425 469 GHVDEFLSFV 9.519 426 566 IIDIPQLFKT 9.295 427 131 RNFVDKRQWV 9.239 428 289 VVFRVAPWIM 8.408 429 125 CEGRQDRNFV 7.438 430 535 KDLINYNKFV 6.880 431 579 KATAFFPDLV 6.295 432 204 SSYDAKRAQV 5.957 433 517 VVDDEQVKTI 5.854 434 612 CLEEKVRSLL 5.605 435 653 KPFSFKWWNM 5.355 436 253 GLSFPDAGFT 5.328 437 630 FIDDFTPYHM 5.153 438 441 RVTQVVRDFL 5.038 439 288 TVVFRVAPWI 5.021 440 375 ELQDFPYKRI 4.812 441 302 TLPPLEVYVC 4.685 442 284 IFTDTVVFRV 4.491 443 191 AALFDDHKLV 3.574 444 108 AVLYLTCVDI 3.378 445 462 FVDWLAVGHV 3.348 446 416 VVANGKEYPL 3.178 447 230 LGQDKVSYEV 3.165 448 490 LASPGACFKL 2.925 449 408 GNLEVSPPVV 2.824 450 184 VLRTQGPAAL 2.760 451 183 MVLRTQGPAA 2.734 452 199 LVLHTSSYDA 2.734 453 516 GVVDDEQVKT 2.673 454 11 LEHPTSAVCV 2.299 455 421 KEYPLGRILI 2.272 456 598 GIPKPFGPII 2.235 457 17 AVCVAGVETL 2.107 458 407 FGNLEVSPPV 2.088 459 309 YVCRVRNNTC 2.000 460 262 TGLISFHVTL 1.961 461 314 RNNTCFVDAV 1.944 462 162 DVQDNCDQHV 1.871 463 620 LLEPLGLHCT 1.865 464 280 SASPIFTDTV 1.799 465 487 RMLLASPGAC 1.726 466 43 YGTPGVDIYI 1.723 467 325 ELARKAGCKL 1.602 468 538 INYNKFVQSC 1.542 469 175 QDLEDMSVMV 1.465 470 466 LAVGHVDEFL 1.359 471 317 TCFVDAVAEL 1.187 472 294 APWIMTPSTL 1.157 473 436 GSSGRRVTQV 1.044 474 611 CCLEEKVRSL 0.973 475 601 KPFGPIINGC 0.966 476 498 KLFQEKQKCG 0.965 477 443 TQVVRDFLHA 0.957 478 583 FFPDLVNMLV 0.911 479 358 QAPHKTLPVV 0.911 480 588 VNMLVLGKHL 0.877 481 182 VMVLRTQGPA 0.793 482 18 VCVAGVETLV 0.772 483 557 RELGLAECDI 0.751 484 578 KKATAFFPDL 0.750 485 114 CVDISLDCDL 0.748 486 33 VPEGTEMFEV 0.659 487 581 TAFFPDLVNM 0.587 488 20 VAGVETLVDI 0.567 489 105 LAYAVLYLTC 0.563 490 271 LLDDSNEDFS 0.560 491 270 TLLDDSNEDF 0.554 492 529 NQVLSNKDLI 0.518 493 522 QVKTISINQV 0.490 494 488 MLLASPGACF 0.469 495 299 TPSTLPPLEV 0.454 496 8 RVSLEHPTSA 0.435 497 279 FSASPIFTDT 0.425 498 70 FDATLEIIVV 0.419 499 552 REVLKRELGL 0.415 500 176 DLEDMSVMVL 0.396 501 v.2-A2-10mers: 184P1e2 3 IMTPSTLAPL 60.325 502 7 STLAPLEVYV 19.658 503 10 APLEVYVCRV 15.841 504 8 TLAPLEVYVC 4.685 505 5 TPSTLAPLEV 0.454 506 2 WIMTPSTLAP 0.035 507 9 LAPLEVYVCR 0.001 508 4 MTPSTLAPLE 0.000 509 1 PWIMTPSTLA 0.000 510 6 PSTLAPLEVY 0.000 511 v.3-A2-10mers: 184P1E2 4 FLSFVPVPDG 0.788 512 9 PVPDGKGFRM 0.227 513 10 VPDGKGFRML 0.036 514 7 FVPVPDGKGF 0.030 515 1 VDEFLSFVPV 0.020 516 5 LSFVPVPDGK 0.000 517 2 DEFLSFVPVP 0.000 518 8 VPVPDGKGFR 0.000 519 6 SFVPVPDGKG 0.000 520 3 EFLSFVPVPD 0.000 521

TABLE IX Pos 123456789 Score SeqID v.1-A3-9mers: 184P1E2 198 KLVLHTSSY 18.000 522 587 LVNMLVLGK 12.000 523 375 ELQDFPYKR 10.800 524 571 QLFKTERKK 10.000 525 516 GVVDDEQVK 9.000 526 253 GLSFPDAGF 9.000 527 263 GLISFHVTL 8.100 528 566 IIDIPQLFK 6.000 529 527 SINQVLSNK 4.500 530 383 RILGPDFGY 4.050 531 454 KVQPPVELF 4.050 532 229 VLGQDKVSY 4.000 533 22 GVETLVDIY 3.600 534 495 ACFKLFQEK 3.000 535 498 KLFQEKQKC 3.000 536 241 RLHGDEERF 3.000 537 489 LLASPGACF 3.000 538 109 VLYLTCVDI 3.000 539 148 GILLVNCDR 2.700 540 271 LLDDSNEDF 2.000 541 433 NLPGSSGRR 1.800 542 111 YLTCVDISL 1.800 543 128 RQDRNFVDK 1.800 544 325 ELARKAGCK 1.800 545 301 STLPPLEVY 1.012 546 79 VMNSPSNDL 0.900 547 650 VCRKPFSFK 0.900 548 374 GELQDFPYK 0.810 549 645 HCGTNVCRK 0.600 550 620 LLEPLGLHC 0.600 551 200 VLHTSSYDA 0.600 552 335 TICPQAENR 0.600 553 649 NVCRKPFSF 0.600 554 460 ELFVDWLAV 0.600 555 202 HTSSYDAKR 0.600 556 544 VQSCIDWNR 0.540 557 234 KVSYEVPRL 0.540 558 192 ALFDDHKLV 0.500 559 289 VVFRVAPWI 0.450 560 589 NMLVLGKHL 0.450 561 44 GTPGVDIYI 0.405 562 625 GLHCTFIDD 0.360 563 348 IQDEMELGY 0.360 564 104 PLAYAVLYL 0.360 565 619 SLLEPLGLH 0.304 566 10 SLEHPTSAV 0.300 567 302 TLPPLEVYV 0.300 568 490 LASPGACFK 0.300 569 512 LLFQGVVDD 0.300 570 487 RMLLASPGA 0.300 571 638 HMLHGEVHC 0.300 572 32 SVPEGTEMF 0.300 573 413 SPPVVANGK 0.300 574 384 ILGPDFGYV 0.270 575 612 CLEEKVRSL 0.270 576 616 KVRSLLEPL 0.270 577 591 LVLGKHLGI 0.270 578 598 GIPKPFGPI 0.243 579 186 RTQGPAALF 0.225 580 524 KTISINQVL 0.203 581 184 VLRTQGPAA 0.200 582 409 NLEVSPPVV 0.200 583 55 NMERGRERA 0.200 584 362 KTLPVVFDS 0.182 585 103 LPLAYAVLY 0.180 586 558 ELGLAECDI 0.180 587 444 QVVRDFLHA 0.180 588 218 GPEDVCEAY 0.180 589 264 LISFHVTLL 0.180 590 86 DLNDSHVQI 0.180 591 179 DMSVMVLRT 0.180 592 305 PLEVYVCRV 0.180 593 560 GLAECDIID 0.180 594 364 LPVVFDSPR 0.180 595 403 GLDSFGNLE 0.180 596 579 KATAFFPDL 0.162 597 647 GTNVCRKPF 0.150 598 470 HVDEFLSFV 0.135 599 536 DLINYNKFV 0.135 600 25 TLVDIYGSV 0.135 601 565 DIIDIPQLF 0.135 602 321 DAVAELARK 0.135 603 285 FTDTVVFRV 0.135 604 466 LAVGHVDEF 0.135 605 386 GPDFGYVTR 0.120 606 569 IPQLFKTER 0.120 607 354 LGYVQAPHK 0.100 608 548 IDWNREVLK 0.100 609 283 PIFTDTVVF 0.100 610 570 PQLFKTERK 0.090 611 534 NKDLINYNK 0.090 612 428 ILIGGNLPG 0.090 613 288 TVVFRVAPW 0.090 614 363 TLPVVFDSP 0.090 615 467 AVGHVDEFL 0.090 616 353 ELGYVQAPH 0.090 617 441 RVTQVVRDF 0.090 618 5 RIVRVSLEH 0.090 619 530 QVLSNKDLI 0.090 620 554 VLKRELGLA 0.090 621 v.2-A3-9mers: 184P1E2 6 STLAPLEVY 0.675 622 7 TLAPLEVYV 0.300 623 9 APLEVYVCR 0.135 624 2 IMTPSTLAP 0.060 625 1 WIMTPSTLA 0.045 626 3 MTPSTLAPL 0.045 627 8 LAPLEVYVC 0.018 628 4 TPSTLAPLE 0.000 629 5 PSTLAPLEV 0.000 630 v.3-A3-9mers- 184P1E2 5 SFVPVPDGK 0.068 631 3 FLSFVPVPD 0.030 632 7 VPVPDGKGF 0.022 633 8 PVPDGKGFR 0.012 634 9 VPDGKGFRM 0.009 635 1 DEFLSFVPV 0.003 636 4 LSFVPVPDG 0.002 637 6 FVPVPDGKG 0.001 638 2 EFLSFVPVP 0.000 639

TABLE X Pos 1234567890 Score SeqID v.1-A3-10mers: 184P1E2 586 DLVNMLVLGK 54.000 640 592 VLGKHLGIPK 40.000 641 625 GLHCTFIDDF 27.000 642 489 LLASPGACFK 20.000 643 200 VLHTSSYDAK 20.000 644 363 TLPVVFDSPR 12.000 645 531 VLSNKDLINY 12.000 646 649 NVCRKPFSFK 9.000 647 560 GLAECDIIDI 8.100 648 263 GLISFHVTLL 8.100 649 192 ALFDDHKLVL 6.000 650 465 WLAVGHVDEF 6.000 651 353 ELGYVQAPHK 6.000 652 488 MLLASPGACF 4.500 653 270 TLLDDSNEDF 3.000 654 628 CTFIDDFTPY 3.000 655 565 DIIDIPQLFK 2.700 656 302 TLPPLEVYVC 2.700 657 445 VVRDFLHAQK 2.000 658 547 CIDWNREVLK 2.000 659 590 MLVLGKHLGI 1.800 660 189 GPAALFDDHK 1.800 661 49 DIYISPNMER 1.800 662 494 GACFKLFQEK 1.800 663 543 FVQSCIDWNR 1.800 664 612 CLEEKVRSLL 1.350 665 297 IMTPSTLPPL 1.350 666 384 ILGPDFGYVT 1.350 667 122 DLNCEGRQDR 1.200 668 102 PLPLAYAVLY 1.200 669 403 GLDSFGNLEV 1.200 670 176 DLEDMSVMVL 1.080 671 128 RQDRNFVDKR 1.080 672 619 SLLEPLGLHC 0.900 673 228 HVLGQDKVSY 0.900 674 2 SLQRIVRVSL 0.900 675 347 WIQDEMELGY 0.800 676 319 FVDAVAELAR 0.800 677 184 VLRTQGPAAL 0.600 678 283 PIFTDTVVFR 0.600 679 109 VLYLTCVDIS 0.600 680 137 RQWVWGPSGY 0.600 681 598 GIPKPFGPII 0.540 682 475 LSFVPAPDGK 0.500 683 571 QLFKTERKKA 0.500 684 374 GELQDFPYKR 0.486 685 512 LLFQGVVDDE 0.450 686 173 CLQDLEDMSV 0.400 687 568 DIPQLFKTER 0.360 688 73 TLEIIVVMNS 0.360 689 526 ISINQVLSNK 0.338 690 289 VVFRVAPWIM 0.300 691 241 RLHGDEERFF 0.300 692 334 LTICPQAENR 0.300 693 574 KTERKKATAF 0.300 694 409 NLEVSPPVVA 0.300 695 454 KVQPPVELFV 0.270 696 639 MLHGEVHCGT 0.225 697 412 VSPPVVANGK 0.225 698 620 LLEPLGLHCT 0.225 699 41 EVYGTPGVDI 0.203 700 569 IPQLFKTERK 0.200 701 10 SLEHPTSAVC 0.200 702 127 GRQDRNFVDK 0.180 703 533 SNKDLINYNK 0.180 704 558 ELGLAECDII 0.180 705 325 ELARKAGCKL 0.180 706 416 VVANGKEYPL 0.180 707 17 AVCVAGVETL 0.180 708 498 KLFQEKQKCG 0.150 709 460 ELFVDWLAVG 0.135 710 38 EMFEVYGTPG 0.135 711 375 ELQDFPYKRI 0.135 712 36 GTEMFEVYGT 0.135 713 78 VVMNSPSNDL 0.135 714 288 TVVFRVAPWI 0.135 715 428 ILIGGNLPGS 0.135 716 548 IDWNREVLKR 0.120 717 218 GPEDVCEAYR 0.120 718 643 EVHCGTNVCR 0.120 719 505 KCGHGRALLF 0.120 720 601 KPFGPIINGC 0.101 721 477 FVPAPDGKGF 0.100 722 644 VHCGTNVCRK 0.090 723 333 KLTICPQAEN 0.090 724 47 GVDIYISPNM 0.090 725 517 VVDDEQVKTI 0.090 726 653 KPFSFKWWNM 0.090 727 182 VMVLRTQGPA 0.090 728 317 TCFVDAVAEL 0.090 729 25 TLVDIYGSVP 0.090 730 198 KLVLHTSSYD 0.090 731 441 RVTQVVRDFL 0.090 732 487 RMLLASPGAC 0.090 733 250 FVEGLSFPDA 0.090 734 199 LVLHTSSYDA 0.090 735 511 ALLFQGVVDD 0.090 736 253 GLSFPDAGFT 0.090 737 108 AVLYLTCVDI 0.090 738 638 HMLHGEVHCG 0.090 739 v.2-A3-10mers: 184P1E2 8 TLAPLEVYVC 2.700 740 3 IMTPSTLAPL 1.350 741 9 LAPLEVYVCR 0.060 742 10 APLEVYVCRV 0.041 743 7 STLAPLEVYV 0.015 744 2 WIMTPSTLAP 0.006 745 6 PSTLAPLEVY 0.005 746 5 TPSTLAPLEV 0.004 747 4 MTPSTLAPLE 0.001 748 1 PWIMTPSTLA 0.000 749 v.3-A3-10mers: 184P1E2 5 LSFVPVPDGK 0.750 750 7 FVPVPDGKGF 0.100 751 4 FLSFVPVPDG 0.090 752 8 VPVPDGKGFR 0.027 753 9 PVPDGKGFRM 0.006 754 10 VPDGKGFRML 0.003 755 2 DEFLSFVPVP 0.001 756 1 VDEFLSFVPV 0.001 757 6 SFVPVPDGKG 0.000 758 3 EFLSFVPVPD 0.000 759

TABLE XI Pos 123456789 Score SeqID v.1-A11-9mers: 184P1E2 516 GVVDDEQVK 9.000 760 587 LVNMLVLGK 4.000 761 128 RQDRNFVDK 1.800 762 566 IIDIPQLFK 0.800 763 495 ACFKLFQEK 0.400 764 527 SINQVLSNK 0.400 765 148 GILLVNCDR 0.360 766 476 SFVPAPDGK 0.300 767 374 GELQDFPYK 0.270 768 50 IYISPNMER 0.240 769 544 VQSCIDWNR 0.240 770 202 HTSSYDAKR 0.200 771 490 LASPGACFK 0.200 772 645 HCGTNVCRK 0.200 773 650 VCRKPFSFK 0.200 774 413 SPPVVANGK 0.200 775 325 ELARKAGCK 0.120 776 386 GPDFGYVTR 0.120 777 570 PQLFKTERK 0.090 778 321 DAVAELARK 0.090 779 571 QLFKTERKK 0.080 780 335 TICPQAENR 0.080 781 433 NLPGSSGRR 0.080 782 22 GVETLVDIY 0.060 783 312 RVRNNTCFV 0.060 784 649 NVCRKPFSF 0.060 785 444 QVVRDFLHA 0.060 786 616 KVRSLLEPL 0.060 787 364 LPVVFDSPR 0.060 788 44 GTPGVDIYI 0.060 789 454 KVQPPVELF 0.060 790 591 LVLGKHLGI 0.060 791 234 KVSYEVPRL 0.060 792 383 RILGPDFGY 0.054 793 375 ELQDFPYKR 0.048 794 524 KTISINQVL 0.045 795 354 LGYVQAPHK 0.040 796 284 IFTDTVVFR 0.040 797 391 YVTREPRDR 0.040 798 289 VVFRVAPWI 0.040 799 593 LGKHLGIPK 0.040 800 133 FVDKRQWVW 0.040 801 548 IDWNREVLK 0.040 802 569 IPQLFKTER 0.040 803 534 NKDLINYNK 0.040 804 432 GNLPGSSGR 0.036 805 231 GQDKVSYEV 0.036 806 5 RIVRVSLEH 0.036 807 288 TVVFRVAPW 0.030 808 530 QVLSNKDLI 0.030 809 285 FTDTVVFRV 0.030 810 183 MVLRTQGPA 0.030 811 186 RTQGPAALF 0.030 812 574 KTERKKATA 0.030 813 261 FTGLISFHV 0.030 814 443 TQVVRDFLH 0.027 815 248 RFFVEGLSF 0.024 816 201 LHTSSYDAK 0.020 817 462 FVDWLAVGH 0.020 818 467 AVGHVDEFL 0.020 819 319 FVDAVAELA 0.020 820 226 YRHVLGQDK 0.020 821 32 SVPEGTEMF 0.020 822 19 CVAGVETLV 0.020 823 470 HVDEFLSFV 0.020 824 610 CCCLEEKVR 0.020 825 446 VRDFLHAQK 0.020 826 608 NGCCCLEEK 0.020 827 190 PAALFDDHK 0.020 828 503 KQKCGHGRA 0.018 829 487 RMLLASPGA 0.018 830 263 GLISFHVTL 0.018 831 198 KLVLHTSSY 0.018 832 542 KFVQSCIDW 0.018 833 553 EVLKRELGL 0.018 834 497 FKLFQEKQK 0.015 835 647 GTNVCRKPF 0.015 836 301 STLPPLEVY 0.015 837 72 ATLEIIVVM 0.015 838 362 KTLPVVFDS 0.013 839 59 GRERADTRR 0.012 840 338 PQAENRNDR 0.012 841 58 RGRERADTR 0.012 842 439 GRRVTQVVR 0.012 843 348 IQDEMELGY 0.012 844 120 DCDLNCEGR 0.012 845 241 RLHGDEERF 0.012 846 598 GIPKPFGPI 0.012 847 62 RADTRRWRF 0.012 848 174 LQDLEDMSV 0.012 849 292 RVAPWIMTP 0.012 850 253 GLSFPDAGF 0.012 851 455 VQPPVELFV 0.012 852 298 MTPSTLPPL 0.010 853 580 ATAFFPDLV 0.010 854 316 NTCFVDAVA 0.010 855 356 YVQAPHKTL 0.010 856 442 VTQVVRDFL 0.010 857 510 RALLFQGVV 0.009 858 64 DTRRWRFDA 0.009 859 v.2-A11-9mers: 184P1E2 9 APLEVYVCR 0.060 860 6 STLAPLEVY 0.015 861 3 MTPSTLAPL 0.010 862 1 WIMTPSTLA 0.008 863 7 TLAPLEVYV 0.004 864 2 IMTPSTLAP 0.001 865 8 LAPLEVYVC 0.000 866 4 TPSTLAPLE 0.000 867 5 PSTLAPLEV 0.000 868 v.3-A11-9mers: 184P1E2 5 SFVPVPDGK 0.300 869 8 PVPDGKGFR 0.040 870 9 VPDGKGFRM 0.006 871 6 FVPVPDGKG 0.002 872 7 VPVPDGKGF 0.002 873 3 FLSFVPVPD 0.000 874 1 DEFLSFVPV 0.000 875 2 EFLSFVPVP 0.000 876 4 LSFVPVPDG 0.000 877

TABLE XII Pos 1234567890 Score SeqID v.1-A11-10mers: 184P1E2 445 VVRDFLHAQK 2.000 878 649 NVCRKPFSFK 2.000 879 592 VLGKHLGIPK 0.800 880 543 FVQSCIDWNR 0.800 881 319 FVDAVAELAR 0.800 882 189 GPAALFDDHK 0.600 883 494 GACFKLFQEK 0.600 884 200 VLHTSSYDAK 0.400 885 489 LLASPGACFK 0.400 886 225 AYRHVLGQDK 0.400 887 547 CIDWNREVLK 0.400 888 128 RQDRNFVDKR 0.360 889 565 DIIDIPQLFK 0.360 890 586 DLVNMLVLGK 0.360 891 334 LTICPQAENR 0.300 892 569 IPQLFKTERK 0.200 893 218 GPEDVCEAYR 0.120 894 454 KVQPPVELFV 0.120 895 643 EVHCGTNVCR 0.120 896 353 ELGYVQAPHK 0.120 897 374 GELQDFPYKR 0.108 898 496 CFKLFQEKQK 0.100 899 49 DIYISPNMER 0.096 900 324 AELARKAGCK 0.090 901 363 TLPVVFDSPR 0.080 902 289 VVFRVAPWIM 0.080 903 533 SNKDLINYNK 0.080 904 127 GRQDRNFVDK 0.060 905 609 GCCCLEEKVR 0.060 906 441 RVTQVVRDFL 0.060 907 199 LVLHTSSYDA 0.060 908 8 RVSLEHPTSA 0.060 909 47 GVDIYISPNM 0.060 910 78 VVMNSPSNDL 0.040 911 478 VPAPDGKGFR 0.040 912 416 VVANGKEYPL 0.040 913 337 CPQAENRNDR 0.040 914 607 INGCCCLEEK 0.040 915 239 VPRLHGDEER 0.040 916 303 LPPLEVYVCR 0.040 917 475 LSFVPAPDGK 0.040 918 432 GNLPGSSGRR 0.036 919 390 GYVTREPRDR 0.036 920 137 RQWVWGPSGY 0.036 921 526 ISINQVLSNK 0.030 922 515 QGVVDDEQVK 0.030 923 228 HVLGQDKVSY 0.030 924 108 AVLYLTCVDI 0.030 925 442 VTQVVRDFLH 0.030 926 574 KTERKKATAF 0.030 927 288 TVVFRVAPWI 0.030 928 183 MVLRTQGPAA 0.030 929 568 DIPQLFKTER 0.024 930 653 KPFSFKWWNM 0.024 931 122 DLNCEGRQDR 0.024 932 560 GLAECDIIDI 0.024 933 403 GLDSFGNLEV 0.024 934 628 CTFIDDFTPY 0.020 935 522 QVKTISINQV 0.020 936 412 VSPPVVANGK 0.020 937 250 FVEGLSFPDA 0.020 938 17 AVCVAGVETL 0.020 939 114 CVDISLDCDL 0.020 940 644 VHCGTNVCRK 0.020 941 462 FVDWLAVGHV 0.020 942 320 VDAVAELARK 0.020 943 91 HVQISYHSSH 0.020 944 587 LVNMLVLGKH 0.020 945 373 NGELQDFPYK 0.020 946 147 GGILLVNCDR 0.018 947 443 TQVVRDFLHA 0.018 948 383 RILGPDFGYV 0.018 949 263 GLISFHVTLL 0.018 950 260 GFTGLISFHV 0.018 951 312 RVRNNTCFVD 0.018 952 548 IDWNREVLKR 0.016 953 418 ANGKEYPLGR 0.016 954 192 ALFDDHKLVL 0.016 955 283 PIFTDTVVFR 0.016 956 301 STLPPLEVYV 0.015 957 431 GGNLPGSSGR 0.012 958 58 RGRERADTRR 0.012 959 501 QEKQKCGHGR 0.012 960 598 GIPKPFGPII 0.012 961 142 GPSGYGGILL 0.012 962 590 MLVLGKHLGI 0.012 963 69 RFDATLEIIV 0.012 964 357 VQAPHKTLPV 0.012 965 625 GLHCTFIDDF 0.012 966 41 EVYGTPGVDI 0.012 967 110 LYLTCVDISL 0.012 968 388 DFGYVTREPR 0.012 969 177 LEDMSVMVLR 0.012 970 22 GVETLVDIYG 0.012 971 505 KCGHGRALLF 0.012 972 477 FVPAPDGKGF 0.010 973 517 VVDDEQVKTI 0.010 974 570 PQLFKTERKK 0.009 975 516 GVVDDEQVKT 0.009 976 529 NQVLSNKDLI 0.009 977 v.2-A11-10mers: 184P1E2 9 LAPLEVYVCR 0.040 978 7 STLAPLEVYV 0.015 979 5 TPSTLAPLEV 0.004 980 3 TMTPSTLAPL 0.004 981 10 APLEVYVCRV 0.003 982 2 WIMTPSTLAP 0.002 983 4 MTPSTLAPLE 0.001 984 8 TLAPLEVYVC 0.001 985 1 PWIMTPSTLA 0.000 986 6 PSTLAPLEVY 0.000 987 v.3-A11-10mers: 184P1E2 8 VPVPDGKGFR 0.060 988 5 LSFVPVPDGK 0.040 989 7 FVPVPDGKGF 0.010 990 9 PVPDGKGFRM 0.006 991 4 FLSFVPVPDG 0.000 992 6 SFVPVPDGKG 0.000 993 10 VPDGKGFRML 0.000 994 1 VDEFLSFVPV 0.000 995 3 EFLSFVPVPD 0.000 996 2 DEFLSFVPVP 0.000 997

TABLE XIII Pos 123456789 Score SeqID v.1-A24-9mers: 184P1E2 95 SYHSSHEPL 200.000 998 422 EYPLGRILI 75.000 999 583 FFPDLVNML 51.840 1000 42 VYGTPGVDI 50.000 1001 318 CFVDAVAEL 39.600 1002 193 LFDDHKLVL 24.000 1003 524 KTISINQVL 20.160 1004 248 RFFVEGLSF 20.000 1005 346 RWIQDEMEL 13.200 1006 618 RSLLEPLGL 12.000 1007 69 RFDATLEII 10.000 1008 579 KATAFFPDL 9.600 1009 616 KVRSLLEPL 9.600 1010 539 NYNKFVQSC 9.000 1011 402 SGLDSFGNL 8.640 1012 442 VTQVVRDFL 8.400 1013 355 GYVQAPHKT 8.250 1014 505 KCGHGRALL 8.000 1015 234 KVSYEVPRL 8.000 1016 110 LYLTCVDIS 7.500 1017 308 VYVCRVRNN 7.500 1018 589 NMLVLGKHL 7.200 1019 454 KVQPPVELF 7.200 1020 79 VMNSPSNDL 7.200 1021 612 CLEEKVRSL 7.200 1022 145 GYGGILLVN 7.000 1023 29 IYGSVPEGT 7.000 1024 191 AALFDDHKL 6.600 1025 491 ASPGACFKL 6.600 1026 565 DIIDIPQLF 6.048 1027 298 MTPSTLPPL 6.000 1028 417 VANGKEYPL 6.000 1029 553 EVLKRELGL 6.000 1030 222 VCEAYRHVL 6.000 1031 529 NQVLSNKDL 6.000 1032 186 RTQGPAALF 6.000 1033 263 GLISFHVTL 6.000 1034 399 RSVSGLDSF 6.000 1035 18 VCVAGVETL 6.000 1036 356 YVQAPHKTL 6.000 1037 106 AYAVLYLTC 6.000 1038 111 YLTCVDISL 5.600 1039 467 AVGHVDEFL 5.600 1040 441 RVTQVVRDF 5.600 1041 3 LQRIVRVSL 5.600 1042 205 SYDAKRAQV 5.000 1043 256 FPDAGFTGL 4.800 1044 326 LARKAGCKL 4.400 1045 482 DGKGFRMLL 4.000 1046 62 RADTRRWRF 4.000 1047 264 LISFHVTLL 4.000 1048 547 CIDWNREVL 4.000 1049 97 HSSHEPLPL 4.000 1050 241 RLHGDEERF 4.000 1051 142 GPSGYGGIL 4.000 1052 166 NCDQHVHCL 4.000 1053 32 SVPEGTEMF 3.600 1054 622 EPLGLHCTF 3.600 1055 466 LAVGHVDEF 3.300 1056 647 GTNVCRKPF 3.000 1057 582 AFFPDLVNM 3.000 1058 290 VFRVAPWIM 2.500 1059 478 VPAPDGKGF 2.400 1060 271 LLDDSNEDF 2.400 1061 492 SPGACFKLF 2.400 1062 44 GTPGVDIYI 2.100 1063 649 NVCRKPFSF 2.000 1064 506 CGHGRALLF 2.000 1065 489 LLASPGACF 2.000 1066 253 GLSFPDAGF 2.000 1067 259 AGFTGLISF 2.000 1068 598 GIPKPFGPI 1.800 1069 86 DLNDSHVQI 1.800 1070 21 AGVETLVDI 1.800 1071 141 WGPSGYGGI 1.500 1072 561 LAECDIIDI 1.500 1073 530 QVLSNKDLI 1.500 1074 559 LGLAECDII 1.500 1075 591 LVLGKHLGI 1.500 1076 542 KFVQSCIDW 1.500 1077 289 VVFRVAPWI 1.400 1078 540 YNKFVQSCI 1.400 1079 72 ATLEIIVVM 1.260 1080 599 IPKPFGPII 1.200 1081 421 KEYPLGRIL 1.152 1082 132 NFVDKRQWV 1.080 1083 629 TFIDDFTPY 1.080 1084 558 ELGLAECDI 1.000 1085 376 LQDFPYKRI 1.000 1086 109 VLYLTCVDI 1.000 1087 31 GSVPEGTEM 0.990 1088 613 LEEKVRSLL 0.840 1089 595 KHLGIPKPF 0.840 1090 426 GRILIGGNL 0.840 1091 50 IYISPNMER 0.825 1092 66 RRWRFDATL 0.800 1093 551 NREVLKREL 0.792 1094 535 KDLINYNKF 0.792 1095 390 GYVTREPRD 0.750 1096 236 SYEVPRLHG 0.750 1097 v.2-A24-9mers: 184P1E2 3 MTPSTLAPL 6.000 1098 1 WIMTPSTLA 0.150 1099 8 LAPLEVYVC 0.150 1100 6 STLAPLEVY 0.150 1101 7 TLAPLEVYV 0.144 1102 9 APLEVYVCR 0.025 1103 4 TPSTLAPLE 0.012 1104 2 IMTPSTLAP 0.012 1105 5 PSTLAPLEV 0.011 1106 v.3-A24-9mers: 184P1E2 7 VPVPDGKGF 3.600 1107 9 VPDGKGFRM 0.500 1108 5 SFVPVPDGK 0.126 1109 2 EFLSFVPVP 0.075 1110 6 FVPVPDGKG 0.017 1111 3 FLSFVPVPD 0.014 1112 1 DEFLSFVPV 0.012 1113 4 LSFVPVPDG 0.010 1114 8 PVPDGKGFR 0.002 1115

TABLE XIV Pos 1234567890 Score SeqID v.1-A24-10mers: 184P1E2 110 LYLTCVDISL 420.000 1116 355 GYVQAPHKTL 300.000 1117 205 SYDAKRAQVF 120.000 1118 539 NYNKFVQSCI 105.000 1119 255 SFPDAGFTGL 43.200 1120 582 AFFPDLVNML 34.560 1121 367 VFDSPRNGEL 22.000 1122 308 VYVCRVRNNT 12.600 1123 380 PYKRILGPDF 12.000 1124 441 RVTQVVRDFL 11.200 1125 612 CLEEKVRSLL 10.080 1126 466 LAVGHVDEFL 8.400 1127 2 SLQRIVRVSL 8.400 1128 503 KQKCGHGRAL 8.000 1129 611 CCLEEKVRSL 7.200 1130 101 EPLPLAYAVL 7.200 1131 588 VNMLVLGKHL 7.200 1132 546 SCIDWNREVL 7.200 1133 176 DLEDMSVMVL 7.200 1134 78 VVMNSPSNDL 7.200 1135 550 WNREVLKREL 6.336 1136 263 GLISFHVTLL 6.000 1137 528 INQVLSNKDL 6.000 1138 141 WGPSGYGGIL 6.000 1139 574 KTERKKATAF 6.000 1140 262 TGLISFHVTL 6.000 1141 604 GPIINGCCCL 6.000 1142 103 LPLAYAVLYL 6.000 1143 145 GYGGILLVNC 6.000 1144 425 LGRILIGGNL 5.600 1145 490 LASPGACFKL 5.280 1146 106 AYAVLYLTCV 5.000 1147 42 VYGTPGVDIY 5.000 1148 114 CVDISLDCDL 4.800 1149 297 IMTPSTLPPL 4.800 1150 401 VSGLDSFGNL 4.800 1151 221 DVCEAYRHVL 4.800 1152 165 DNCDQHVHCL 4.800 1153 192 ALFDDHKLVL 4.800 1154 395 EPRDRSVSGL 4.800 1155 480 APDGKGFRML 4.800 1156 168 DQHVHCLQDL 4.800 1157 325 ELARKAGCKL 4.400 1158 452 AQKVQPPVEL 4.400 1159 317 TCFVDAVAEL 4.400 1160 376 LQDFPYKRIL 4.000 1161 584 FPDLVNMLVL 4.000 1162 184 VLRTQGPAAL 4.000 1163 241 RLHGDEERFF 4.000 1164 294 APWIMTPSTL 4.000 1165 142 GPSGYGGILL 4.000 1166 505 KCGHGRALLF 4.000 1167 17 AVCVAGVETL 4.000 1168 563 ECDIIDIPQL 4.000 1169 94 ISYHSSHEPL 4.000 1170 416 VVANGKEYPL 4.000 1171 491 ASPGACFKLF 3.600 1172 270 TLLDDSNEDF 3.600 1173 31 GSVPEGTEMF 3.600 1174 282 SPIFTDTVVF 3.000 1175 648 TNVCRKPFSF 3.000 1176 124 NCEGRQDRNF 3.000 1177 252 EGLSFPDAGF 3.000 1178 477 FVPAPDGKGF 3.000 1179 488 MLLASPGACF 3.000 1180 370 SPRNGELQDF 2.400 1181 468 VGHVDEFLSF 2.400 1182 359 APHKTLPVVF 2.400 1183 465 WLAVGHVDEF 2.200 1184 67 RWRFDATLEI 2.200 1185 597 LGIPKPFGPI 2.160 1186 288 TVVFRVAPWI 2.100 1187 646 CGTNVCRKPF 2.000 1188 310 VCRVRNNTCF 2.000 1189 258 DAGFTGLISF 2.000 1190 625 GLHCTFIDDF 2.000 1191 275 SNEDFSASPI 1.800 1192 375 ELQDFPYKRI 1.800 1193 43 YGTPGVDIYI 1.680 1194 343 RNDRWIQDEM 1.540 1195 339 QAENRNDRWI 1.500 1196 108 AVLYLTCVDI 1.500 1197 622 EPLGLHCTFI 1.500 1198 542 KFVQSCIDWN 1.500 1199 598 GIPKPFGPII 1.500 1200 529 NQVLSNKDLI 1.500 1201 590 MLVLGKHLGI 1.500 1202 318 CFVDAVAELA 1.260 1203 583 FFPDLVNMLV 1.260 1204 560 GLAECDIIDI 1.200 1205 517 VVDDEQVKTI 1.200 1206 140 VWGPSGYGGI 1.200 1207 69 RFDATLEIIV 1.200 1208 552 REVLKRELGL 1.200 1209 419 NGKEYPLGRI 1.200 1210 207 DAKRAQVFHI 1.000 1211 256 FPDAGFTGLI 1.000 1212 20 VAGVETLVDI 1.000 1213 41 EVYGTPGVDI 1.000 1214 653 KPFSFKWWNM 1.000 1215 v.2-A24-10mers: 184P1E2 3 IMTPSTLAPL 4.800 1216 7 STLAPLEVYV 0.180 1217 10 APLEVYVCRV 0.180 1218 8 TLAPLEVYVC 0.120 1219 5 TPSTLAPLEV 0.110 1220 9 LAPLEVYVCR 0.021 1221 4 MTPSTLAPLE 0.018 1222 1 PWIMTPSTLA 0.015 1223 2 WIMTPSTLAP 0.015 1224 6 PSTLAPLEVY 0.010 1225 v.3-A24-10mers: 184P1E2 10 VPDGKGFRML 4.800 1226 7 FVPVPDGKGF 3.000 1227 3 EFLSFVPVPD 0.105 1228 6 SFVPVPDGKG 0.099 1229 9 PVPDGKGFRM 0.090 1230 1 VDEFLSFVPV 0.018 1231 8 VPVPDGKGFR 0.018 1232 5 LSFVPVPDGK 0.014 1233 4 FLSFVPVPDG 0.010 1234 2 DEFLSFVPVP 0.001 1235

TABLE XV Pos 123456789 Score SeqID v.1-B7-9mers: 184P1E2 616 KVRSLLEPL 200.000 1236 326 LARKAGCKL 120.000 1237 142 GPSGYGGIL 80.000 1238 467 AVGHVDEFL 60.000 1239 3 LQRIVRVSL 60.000 1240 191 AALFDDHKL 36.000 1241 356 YVQAPHKTL 30.000 1242 256 FPDAGFTGL 24.000 1243 553 EVLKRELGL 20.000 1244 234 KVSYEVPRL 20.000 1245 480 APDGKGFRM 18.000 1246 417 VANGKEYPL 12.000 1247 579 KATAFFPDL 12.000 1248 491 ASPGACFKL 12.000 1249 359 APHKTLPVV 12.000 1250 312 RVRNNTCFV 10.000 1251 599 IPKPFGPII 8.000 1252 294 APWIMTPST 6.000 1253 442 VTQVVRDFL 6.000 1254 482 DGKGFRMLL 6.000 1255 79 VMNSPSNDL 6.000 1256 505 KCGHGRALL 6.000 1257 263 GLISFHVTL 4.000 1258 589 NMLVLGKHL 4.000 1259 246 EERFFVEGL 4.000 1260 402 SGLDSFGNL 4.000 1261 264 LISFHVTLL 4.000 1262 18 VCVAGVETL 4.000 1263 101 EPLPLAYAV 4.000 1264 529 NQVLSNKDL 4.000 1265 524 KTISINQVL 4.000 1266 97 HSSHEPLPL 4.000 1267 618 RSLLEPLGL 4.000 1268 111 YLTCVDISL 4.000 1269 434 LPGSSGRRV 4.000 1270 282 SPIFTDTVV 4.000 1271 298 MTPSTLPPL 4.000 1272 126 EGRQDRNFV 3.000 1273 72 ATLEIIVVM 3.000 1274 438 SGRRVTQVV 2.000 1275 13 HPTSAVCVA 2.000 1276 395 EPRDRSVSG 2.000 1277 604 GPIINGCCC 2.000 1278 530 QVLSNKDLI 2.000 1279 303 LPPLEVYVC 2.000 1280 239 VPRLHGDEE 2.000 1281 591 LVLGKHLGI 2.000 1282 289 VVFRVAPWI 2.000 1283 370 SPRNGELQD 2.000 1284 547 CIDWNREVL 1.800 1285 222 VCEAYRHVL 1.800 1286 64 DTRRWRFDA 1.500 1287 17 AVCVAGVET 1.500 1288 322 AVAELARKA 1.500 1289 21 AGVETLVDI 1.200 1290 166 NCDQHVHCL 1.200 1291 208 AKRAQVFHI 1.200 1292 584 FPDLVNMLV 1.200 1293 612 CLEEKVRSL 1.200 1294 31 GSVPEGTEM 1.000 1295 19 CVAGVETLV 1.000 1296 310 VCRVRNNTC 1.000 1297 221 DVCEAYRHV 1.000 1298 344 NDRWIQDEM 1.000 1299 184 VLRTQGPAA 1.000 1300 290 VFRVAPWIM 1.000 1301 172 HCLQDLEDM 1.000 1302 309 YVCRVRNNT 0.750 1303 107 YAVLYLTCV 0.600 1304 580 ATAFFPDLV 0.600 1305 451 HAQKVQPPV 0.600 1306 453 QKVQPPVEL 0.600 1307 598 GIPKPFGPI 0.600 1308 510 RALLFQGVV 0.600 1309 632 DDFTPYHML 0.600 1310 358 QAPHKTLPV 0.600 1311 192 ALFDDHKLV 0.600 1312 281 ASPIFTDTV 0.600 1313 71 DATLEIIVV 0.600 1314 458 PVELFVDWL 0.600 1315 6 IVRVSLEHP 0.500 1316 445 VVRDFLHAQ 0.500 1317 643 EVHCGTNVC 0.500 1318 183 MVLRTQGPA 0.500 1319 444 QVVRDFLHA 0.500 1320 392 VTREPRDRS 0.450 1321 143 PSGYGGILL 0.400 1322 377 QDFPYKRIL 0.400 1323 564 CDIIDIPQL 0.400 1324 492 SPGACFKLF 0.400 1325 368 FDSPRNGEL 0.400 1326 169 QHVHCLQDL 0.400 1327 622 EPLGLHCTF 0.400 1328 421 KEYPLGRIL 0.400 1329 346 RWIQDEMEL 0.400 1330 653 KPFSFKWWN 0.400 1331 504 QKCGHGRAL 0.400 1332 540 YNKFVQSCI 0.400 1333 104 PLAYAVLYL 0.400 1334 44 GTPGVDIYI 0.400 1335 v.2-B7-9mers: 184P1E2 3 MTPSTLAPL 4.000 1336 9 APLEVYVCR 0.600 1337 1 WIMTPSTLA 0.450 1338 8 LAPLEVYVC 0.300 1339 4 TPSTLAPLE 0.200 1340 7 TLAPLEVYV 0.200 1341 6 STLAPLEVY 0.030 1342 5 PSTLAPLEV 0.020 1343 2 IMTPSTLAP 0.010 1344 v.3-B7-9mers: 184P1E2 9 VPDGKGFRM 6.000 1345 7 VPVPDGKGF 0.400 1346 6 FVPVPDGKG 0.075 1347 1 DEFLSFVPV 0.020 1348 4 LSFVPVPDG 0.015 1349 3 FLSFVPVPD 0.010 1350 8 PVPDGKGFR 0.005 1351 2 EFLSFVPVP 0.001 1352 5 SFVPVPDGK 0.001 1353

TABLE XVI Pos 1234567890 Score SeqID v.1-B7-10mers: 184P1E2 395 EPRDRSVSGL 800.000 1354 294 APWIMTPSTL 240.000 1355 78 VVMNSPSNDL 90.000 1356 142 GPSGYGGILL 80.000 1357 604 GPIINGCCCL 80.000 1358 101 EPLPLAYAVL 80.000 1359 103 LPLAYAVLYL 80.000 1360 480 APDGKGFRML 72.000 1361 17 AVCVAGVETL 60.000 1362 425 LGRILIGGNL 40.000 1363 184 VLRTQGPAAL 40.000 1364 550 WNREVLKREL 40.000 1365 441 RVTQVVRDFL 30.000 1366 221 DVCEAYRHVL 30.000 1367 584 FPDLVNMLVL 24.000 1368 416 VVANGKEYPL 20.000 1369 653 KPFSFKWWNM 20.000 1370 452 AQKVQPPVEL 18.000 1371 588 VNMLVLGKHL 12.000 1372 466 LAVGHVDEFL 12.000 1373 192 ALFDDHKLVL 12.000 1374 490 LASPGACFKL 12.000 1375 622 EPLGLHCTFI 8.000 1376 457 PRVELFVDWL 8.000 1377 546 SCIDWNREVL 6.000 1378 114 CVDISLDCDL 6.000 1379 299 TPSTLPPLEV 6.000 1380 2 SLQRIVRVSL 6.000 1381 108 AVLYLTCVDI 6.000 1382 289 VVFRVAPWIM 5.000 1383 6 IVRVSLEHPT 5.000 1384 401 VSGLDSFGNL 4.000 1385 611 CCLEEKVRSL 4.000 1386 503 KQKCGHGRAL 4.000 1387 141 WGPSGYGGIL 4.000 1388 635 TPYHMLHGEV 4.000 1389 325 ELARKAGCKL 4.000 1390 317 TCFVDAVAEL 4.000 1391 263 GLISFHVTLL 4.000 1392 297 IMTPSTLPPL 4.000 1393 370 SPRNGELQDF 4.000 1394 65 TRRWRFDATL 4.000 1395 528 INQVLSNKDL 4.000 1396 165 DNCDQHVHCL 4.000 1397 168 DQHVHCLQDL 4.000 1398 94 ISYHSSHEPL 4.000 1399 262 TGLISFHVTL 4.000 1400 71 DATLEIIVVM 3.000 1401 434 LPGSSGRRVT 3.000 1402 326 LARKAGCKLT 3.000 1403 41 EVYGTPGVDI 3.000 1404 581 TAFFPDLVNM 3.000 1405 256 FPDAGFTGLI 2.400 1406 158 DPSCDVQDNC 2.000 1407 508 HGRALLFQGV 2.000 1408 288 TVVFRVAPWI 2.000 1409 392 VTREPRDRSV 2.000 1410 601 KPFGPIINGC 2.000 1411 239 VPRLHGDEER 2.000 1412 191 AALFDDHKLV 1.800 1413 612 CLEEKVRSLL 1.800 1414 47 GVDIYISPNM 1.500 1415 563 ECDIIDIPQL 1.200 1416 190 PAALFDDHKL 1.200 1417 176 DLEDMSVMVL 1.200 1418 376 LQDFPYKRIL 1.200 1419 33 VPEGTEMFEV 1.200 1420 359 APHKTLPVVF 1.200 1421 207 DAKRAQVFHI 1.200 1422 20 VAGVETLVDI 1.200 1423 582 AFFPDLVNML 1.200 1424 64 DTRRWRFDAT 1.000 1425 30 YGSVPEGTEM 1.000 1426 454 KVQPPVELFV 1.000 1427 162 DVQDNCDQHV 1.000 1428 522 QVKTISINQV 1.000 1429 504 QKCGHGRALL 0.600 1430 579 KATAFFPDLV 0.600 1431 355 GYVQAPHKTL 0.600 1432 597 LGIPKPFGPI 0.600 1433 419 NGKEYPLGRI 0.600 1434 281 ASPIFTDTVV 0.600 1435 375 ELQDFPYKRI 0.600 1436 358 QAPHKTLPVV 0.600 1437 280 SASPIFTDTV 0.600 1438 517 VVDDEQVKTI 0.600 1439 199 LVLHTSSYDA 0.500 1440 553 EVLKRELGLA 0.500 1441 8 RVSLEHPTSA 0.500 1442 183 MVLRTQGPAA 0.500 1443 445 VVRDFLHAQK 0.500 1444 312 RVRNNTCFVD 0.500 1445 616 KVRSLLEPLG 0.500 1446 309 YVCRVRNNTC 0.500 1447 516 GVVDDEQVKT 0.500 1448 43 YGTPGVDIYI 0.400 1449 578 KKATAFFPDL 0.400 1450 599 IPKPFGPIIN 0.400 1451 456 QPPVELFVDW 0.400 1452 233 DKVSYEVPRL 0.400 1453 v.2-B7-10mers: 184P1E2 10 APLEVYVCRV 12.000 1454 5 TPSTLAPLEV 4.000 1455 3 IMTPSTLAPL 4.000 1456 7 STLAPLEVYV 0.200 1457 8 TLAPLEVYVC 0.100 1458 9 LAPLEVYVCR 0.030 1459 2 WIMTPSTLAP 0.030 1460 4 MTPSTLAPLE 0.010 1461 6 PSTLAPLEVY 0.003 1462 1 PWIMTPSTLA 0.002 1463 v.3-B7-10mers: 184P1E2 10 VPDGKGFRML 24.000 1464 9 PVPDGKGFRM 0.500 1465 8 VPVPDGKGFR 0.200 1466 7 FVPVPDGKGF 0.100 1467 4 FLSFVPVPDG 0.015 1468 5 LSFVPVPDGK 0.010 1469 1 VDEFLSFVPV 0.006 1470 6 SFVPVPDGKG 0.002 1471 2 DEFLSFVPVP 0.001 1472 3 EFLSFVPVPD 0.001 1473

TABLE XVII Pos 123456789 Score SeqID v.1-B35-9 mers: 184P1E2 103 LPLAYAVLY 40.000 1474 478 VPAPDGKGF 30.000 1475 218 GPEDVCEAY 24.000 1476 599 IPKPFGPII 24.000 1477 492 SPGACFKLF 20.000 1478 622 EPLGLHCTF 20.000 1479 142 GPSGYGGIL 20.000 1480 31 GSVPEGTEM 15.000 1481 618 RSLLEPLGL 15.000 1482 532 LSNKDLINY 15.000 1483 480 APDGKGFRM 12.000 1484 399 RSVSGLDSF 10.000 1485 326 LARKAGCKL 9.000 1486 97 HSSHEPLPL 7.500 1487 579 KATAFFPDL 6.000 1488 256 FPDAGFTGL 6.000 1489 616 KVRSLLEPL 6.000 1490 491 ASPGACFKL 5.000 1491 191 AALFDDHKL 4.500 1492 101 EPLPLAYAV 4.000 1493 359 APHKTLPVV 4.000 1494 35 EGTEMFEVY 4.000 1495 434 LPGSSGRRV 4.000 1496 383 RILGPDFGY 4.000 1497 282 SPIFTDTVV 4.000 1498 653 KPFSFKWWN 4.000 1499 198 KLVLHTSSY 4.000 1500 72 ATLEIIVVM 4.000 1501 417 VANGKEYPL 3.000 1502 158 DPSCDVQDN 3.000 1503 3 LQRIVRVSL 3.000 1504 172 HCLQDLEDM 3.000 1505 241 RLHGDEERF 3.000 1506 482 DGKGFRMLL 3.000 1507 466 LAVGHVDEF 3.000 1508 229 VLGQDKVSY 3.000 1509 82 SPSNDLNDS 3.000 1510 303 LPPLEVYVC 3.000 1511 234 KVSYEVPRL 3.000 1512 45 TPGVDIYIS 3.000 1513 441 RVTQVVRDF 2.000 1514 402 SGLDSFGNL 2.000 1515 294 APWIMTPST 2.000 1516 604 GPIINGCCC 2.000 1517 524 KTISINQVL 2.000 1518 565 DIIDIPQLF 2.000 1519 454 KVQPPVELF 2.000 1520 457 PPVELFVDW 2.000 1521 505 KCGHGRALL 2.000 1522 32 SVPEGTEMF 2.000 1523 13 HPTSAVCVA 2.000 1524 186 RTQGPAALF 2.000 1525 43 YGTPGVDIY 2.000 1526 301 STLPPLEVY 2.000 1527 62 RADTRRWRF 1.800 1528 274 DSNEDFSAS 1.500 1529 131 RNFVDKRQW 1.500 1530 510 RALLFQGVV 1.200 1531 312 RVRNNTCFV 1.200 1532 540 YNKFVQSCI 1.200 1533 348 IQDEMELGY 1.200 1534 584 FPDLVNMLV 1.200 1535 395 EPRDRSVSG 1.200 1536 9 VSLEHPTSA 1.000 1537 356 YVQAPHKTL 1.000 1538 589 NMLVLGKHL 1.000 1539 79 VMNSPSNDL 1.000 1540 264 LISFHVTLL 1.000 1541 15 TSAVCVAGV 1.000 1542 467 AVGHVDEFL 1.000 1543 263 GLISFHVTL 1.000 1544 506 CGHGRALLF 1.000 1545 442 VTQVVRDFL 1.000 1546 98 SSHEPLPLA 1.000 1547 647 GTNVCRKPF 1.000 1548 553 EVLKRELGL 1.000 1549 253 GLSFPDAGF 1.000 1550 1 MSLQRIVRV 1.000 1551 117 ISLDCDLNC 1.000 1552 281 ASPIFTDTV 1.000 1553 18 VCVAGVETL 1.000 1554 655 FSFKWWNMV 1.000 1555 529 NQVLSNKDL 1.000 1556 649 NVCRKPFSF 1.000 1557 111 YLTCVDISL 1.000 1558 298 MTPSTLPPL 1.000 1559 259 AGFTGLISF 1.000 1560 437 SSGRRVTQV 1.000 1561 489 LLASPGACF 1.000 1562 126 EGRQDRNFV 0.900 1563 71 DATLEIIVV 0.900 1564 86 DLNDSHVQI 0.800 1565 21 AGVETLVDI 0.800 1566 254 LSFPDAGFT 0.750 1567 401 VSGLDSFGN 0.750 1568 203 TSSYDAKRA 0.750 1569 629 TFIDDFTPY 0.600 1570 344 NDRWIQDEM 0.600 1571 612 CLEEKVRSL 0.600 1572 22 GVETLVDIY 0.600 1573 v.2-B35-9 mers: 184P1E2 6 STLAPLEVY 2.000 1574 3 MTPSTLAPL 1.000 1575 8 LAPLEVYVC 0.450 1576 9 APLEVYVCR 0.400 1577 7 TLAPLEVYV 0.200 1578 4 TPSTLAPLE 0.200 1579 5 PSTLAPLEV 0.100 1580 1 WIMTPSTLA 0.100 1581 2 IMTPSTLAP 0.010 1582 v.3-B35-9 mers: 184P1E2 7 VPVPDGKGF 30.000 1583 9 VPDGKGFRM 12.000 1584 4 LSFVPVPDG 0.050 1585 1 DEFLSFVPV 0.020 1586 6 FVPVPDGKG 0.010 1587 3 FLSFVPVPD 0.010 1588 8 PVPDGKGFR 0.002 1589 2 EFLSFVPVP 0.001 1590 5 SFVPVPDGK 0.001 1591

TABLE XVIII Pos 1234567890 Score SeqID v.1-B35-10 mers: 184P1E2 395 EPRDRSVSGL 120.000 1592 370 SPRNGELQDF 90.000 1593 653 KPFSFKWWNM 80.000 1594 282 SPIFTDTVVF 30.000 1595 294 APWIMTPSTL 20.000 1596 98 SSHEPLPLAY 20.000 1597 103 LPLAYAVLYL 20.000 1598 359 APHKTLPVVF 20.000 1599 142 GPSGYGGILL 20.000 1600 101 EPLPLAYAVL 20.000 1601 604 GPIINGCCCL 20.000 1602 456 QPPVELFVDW 10.000 1603 581 TAFFPDLVNM 9.000 1604 372 RNGELQDFPY 8.000 1605 622 EPLGLHCTFI 8.000 1606 550 WNREVLKREL 6.000 1607 599 IPKPFGPIIN 6.000 1608 480 APDGKGFRML 6.000 1609 503 KQKCGHGRAL 6.000 1610 584 FPDLVNMLVL 6.000 1611 71 DATLEIIVVM 6.000 1612 94 ISYHSSHEPL 5.000 1613 31 GSVPEGTEMF 5.000 1614 401 VSGLDSFGNL 5.000 1615 491 ASPGACFKLF 5.000 1616 414 PPVVANGKEY 4.000 1617 21 AGVETLVDIY 4.000 1618 137 RQWVWGPSGY 4.000 1619 457 PPVELFVDWL 4.000 1620 347 WIQDEMELGY 4.000 1621 635 TPYHMLHGEV 4.000 1622 299 TPSTLPPLEV 4.000 1623 217 CGPEDVCEAY 4.000 1624 601 KPFGPIINGC 4.000 1625 207 DAKRAQVFHI 3.600 1626 531 VLSNKDLINY 3.000 1627 241 RLHGDEERFF 3.000 1628 364 LPVVFDSPRN 3.000 1629 490 LASPGACFKL 3.000 1630 184 VLRTQGPAAL 3.000 1631 258 DAGFTGLISF 3.000 1632 628 CTFIDDFTPY 3.000 1633 452 AQKVQPPVEL 3.000 1634 310 VCRVRNNTCF 3.000 1635 30 YGSVPEGTEM 3.000 1636 228 HVLGQDKVSY 3.000 1637 425 LGRILIGGNL 3.000 1638 466 LAVGHVDEFL 3.000 1639 256 FPDAGFTGLI 2.400 1640 419 NGKEYPLGRI 2.400 1641 204 SSYDAKRAQV 2.000 1642 192 ALFDDHKLVL 2.000 1643 158 DPSCDVQDNC 2.000 1644 289 VVFRVAPWIM 2.000 1645 546 SCIDWNREVL 2.000 1646 221 DVCEAYRHVL 2.000 1647 165 DNCDQHVHCL 2.000 1648 434 LPGSSGRRVT 2.000 1649 9 VSLEHPTSAV 2.000 1650 270 TLLDDSNEDF 2.000 1651 441 RVTQVVRDFL 2.000 1652 505 KCGHGRALLF 2.000 1653 611 CCLEEKVRSL 2.000 1654 33 VPEGTEMFEV 1.800 1655 477 FVPAPDGKGF 1.500 1656 650 VCRKPFSFKW 1.500 1657 468 VGHVDEFLSF 1.500 1658 343 RNDRWIQDEM 1.200 1659 392 VTREPRDRSV 1.200 1660 560 GLAECDIIDI 1.200 1661 630 FIDDFTPYHM 1.200 1662 579 KATAFFPDLV 1.200 1663 479 PAPDGKGFRM 1.200 1664 20 VAGVETLVDI 1.200 1665 648 TNVCRKPFSF 1.000 1666 300 PSTLPPLEVY 1.000 1667 528 INQVLSNKDL 1.000 1668 317 TCFVDAVAEL 1.000 1669 78 VVMNSPSNDL 1.000 1670 262 TGLISFHVTL 1.000 1671 281 ASPIFTDTVV 1.000 1672 263 GLISFHVTLL 1.000 1673 2 SLQRIVRVSL 1.000 1674 545 QSCIDWNREV 1.000 1675 297 IMTPSTLPPL 1.000 1676 436 GSSGRRVTQV 1.000 1677 437 SSGRRVTQVV 1.000 1678 17 AVCVAGVETL 1.000 1679 325 ELARKAGCKL 1.000 1680 646 CGTNVCRKPF 1.000 1681 625 GLHCTFIDDF 1.000 1682 141 WGPSGYGGIL 1.000 1683 168 DQHVHCLQDL 1.000 1684 588 VNMLVLGKHL 1.000 1685 252 EGLSFPDAGF 1.000 1686 465 WLAVGHVDEF 1.000 1687 416 VVANGKEYPL 1.000 1688 488 MLLASPGACF 1.000 1689 174 LQDLEDMSVM 0.900 1690 191 AALFDDHKLV 0.900 1691 v.2-B35-10 mers 10 APLEVYVCRV 8.000 1692 5 TPSTLAPLEV 4.000 1693 6 PSTLAPLEVY 1.000 1694 3 IMTPSTLAPL 1.000 1695 7 STLAPLEVYV 0.200 1696 8 TLAPLEVYVC 0.150 1697 9 LAPLEVYVCR 0.030 1698 4 MTPSTLAPLE 0.010 1699 2 WIMTPSTLAP 0.010 1700 1 PWIMTPSTLA 0.001 1701 v.3-B35-10 mers 10 VPDGKGFRML 6.000 1702 7 FVPVPDGKGF 1.500 1703 9 PVPDGKGFRM 0.400 1704 8 VPVPDGKGFR 0.200 1705 5 LSFVPVPDGK 0.050 1706 4 FLSFVPVPDG 0.010 1707 1 VDEFLSFVPV 0.006 1708 6 SFVPVPDGKG 0.001 1709 2 DEFLSFVPVP 0.001 1710 3 EFLSFVPVPD 0.001 1711

TABLE XIX Frequently Occurring Motifs avrg. % Name identity Description Potential Function zf-C2H2 34% Zinc finger, C2H2 type Nucleic acid-binding protein functions as transcription factor, nuclear location probable cytochrome_b_N 68% Cytochrome b(N- membrane bound oxidase, generate terminal)/b6/petB superoxide ig 19% Immunoglobulin domain domains are one hundred amino acids long and include a conserved intradomain disulfide bond. WD40 18% WD domain, G-beta repeat tandem repeats of about 40 residues, each containing a Trp-Asp motif. Function in signal transduction and protein interaction PDZ 23% PDZ domain may function in targeting signaling molecules to sub-membranous sites LRR 28% Leucine Rich Repeat short sequence motifs involved in protein- protein interactions pkinase 23% Protein kinase domain conserved catalytic core common to both serine/threonine and tyrosine protein kinases containing an ATP binding site and a catalytic site PH 16% PH domain pleckstrin homology involved in intracellular signaling or as constituents of the cytoskeleton EGF 34% EGF-like domain 30-40 amino-acid long found in the extracellular domain of membrane-bound proteins or in secreted proteins rvt 49% Reverse transcriptase (RNA-dependent DNA polymerase) ank 25% Ank repeat Cytoplasmic protein, associates integral membrane proteins to the cytoskeleton oxidored_q1 32% NADH- membrane associated. Involved in proton Ubiquinone/plastoquinone translocation across the membrane (complex I), various chains efhand 24% EF hand calcium-binding domain, consists of a 12 residue loop flanked on both sides by a 12 residue alpha-helical domain rvp 79% Retroviral aspartyl protease Aspartyl or acid proteases, centered on a catalytic aspartyl residue Collagen 42% Collagen triple helix repeat extracellular structural proteins involved in (20 copies) formation of connective tissue. The sequence consists of the G-X-Y and the polypeptide chains forms a triple helix. fn3 20% Fibronectin type III domain Located in the extracellular ligand-binding region of receptors and is about 200 amino acid residues long with two pairs of cysteines involved in disulfide bonds 7tm_1 19% 7 transmembrane receptor seven hydrophobic transmembrane regions, (rhodopsin family) with the N-terminus located extracellularly while the C-terminus is cytoplasmic. Signal through G proteins

TABLE XX Motifs and Post-translational Modifications of 184P1E2 N-glycosylation site 88-91 NDSH 315-318 NNTC cAMP- and cGMP-dependent protein kinase phosphorylation site 440-443 RRvT 578-581 KKaT Protein kinase C phosphorylation site 65-67 TrR 370-372 SpR 438-440 SgR 533-535 SnK 575-577 TeR 656-658 SfK Casein kinase II phosphorylation site 25-28 TlvD 32-35 SvpE  98-101 SshE 113-116 TcvD 204-207 SsyD 255-258 SfpD 270-273 TllD 275-278 SneD 402-405 SglD 533-536 SnkD 546-549 SciD 619-622 SllE 629-632 TfiD N-myristoylation site 331-336 GCklTI 432-437 GNlpGS 560-565 GLaeCD 625-630 GLhcTF 647-652 GTnvCR Amidation site 438-441 sGRR

TABLE XXI Protein Properties of 184P1E2 Bioinformatic Program Outcome 184P1E2 v.1 ORF ORF finder bp42-2036 (includes stop) Protein length 664 aa Transmembrane TM Pred No TM region HMMTop no TM, N terminus extracellular Sosui soluble protein TMHMM no TM, extracellular Signal Peptide Signal P none pI pI/MW tool pI5.3 Molecular weight pI/MW tool 74.7 kDa Localization PSORT Mitochondrial matrix space 59%, mitochondrial inner membrane 29.9%, mitochondrial intermembrane space 29.9%, mitochondrial outer membrane 29.9% PSORT II 47.8 cytoplasmic, 21.7% nuclear, 17.4% mitochondrial Motifs Pfam Protein-arginine deiminase (PAD) Prints Cadherin signature, FAD dependent pyridine nucleotide reductase signature, Blocks G10 protein, urocanase, phosphoglycerate kinase family, developmental signaling protein Wnt1family 184P1E2 v.2 ORF ORF finder bp42-2036 (includes stop) Protein length 664 aa Transmembrane TM Pred no TM region HMMTop no TM, N terminus extracellular Sosui soluble protein TMHMM no TM, extracellular Signal Peptide Signal P none pI pI/MW tool pI5.3 Molecular pI/MW tool 74.7 kDa weight Localization PSORT Mitochondrial matrix space 59%, mitochondrial inner membrane 29.9%, mitochondrial intermembrane space 29.9%, mitochondrial outer membrane 29.9% PSORT II 47.8% cytoplasmic, 21.7% nuclear, 17.4% mitochondrial Motifs Pfam Protein-arginine deiminase (PAD) Prints Cadherin signature, FAD dependent pyridine nucleotide reductase signature Blocks G10 protein, urocanase, phosphoglycerate kinase family, developmental signaling protein Wnt1family 184P1E2 v.3 ORF ORF finder bp42-2036 (includes stop) Protein length 664 aa Transmembrane TM Pred no TM region HMMTop no TM, N terminus extracellular Sosui soluble protein TMHMM no TM, extracellular Signal Peptide Signal P none pI pI/MW tool pI5.3 Molecular pI/MW tool 74.7 kDa weight Localization PSORT Mitochondrial matrix space 59%, mitochondrial inner membrane 29.9%, mitochondrial intermembrane space 29.9%, mitochondrial outer membrane 29.9% PSORT II 47.8 cytoplasmic, 21.7% nuclear, 17.4% mitochondrial Motifs Pfam Protein-arginine deiminase (PAD) Prints Cadherin signature, FAD dependent pyridine nucleotide reductase signature Blocks G10 protein, urocanase, phosphoglycerate kinase family, developmental signaling protein Wnt1family

TABLE XXII 184P1E2 v.1: HLA Peptide Scoring Results A1 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 99 S H E P L P L A Y 37 1712 348 I Q D E M E L C Y 31 1713 301 S T L P P L E V Y 29 1714 218 C P E D V C E A Y 27 1715 373 N G E L Q D F P Y 27 1716 22 G V E T L V D I Y 26 1717 43 Y G T P G V D I Y 24 1718 532 L S N K D L I N Y 23 1719 620 L L E P L G L H C 22 1720 88 N D S H V Q I S Y 21 1721 236 S Y E V P R L H G 20 1722 285 F T D T V V F R V 20 1723 35 E C T F N F F V Y 19 1724 103 L P L A Y A V L Y 18 1725 629 T F I D D F T P Y 18 1726 138 Q W V W G P S G Y 17 1727 193 L F D D H K L V L 17 1728 229 V L G Q D K V S Y 17 1729 383 R I L G P D F G Y 17 1730 566 I I D I P Q L F K 17 1731 36 G T E M F E V Y G 16 1732 198 K L V L H T S S Y 16 1733 256 F P D A C F T G L 16 1734 415 P V V A N G K E Y 16 1735 574 K T E R K K A T A 16 1736 584 F P D L V N M L V 16 1737 156 R D D P S C D V Q 15 1738 319 F V D A V A F L A 15 1739 613 L F E K V R S L L 15 1740 10 S L E H P T S A V 14 1741 160 S C D V Q D N C D 14 1742 222 V C E A Y R H V L 14 1743 244 G D E F R F F V E 14 1744 265 I S F H V T L L D 14 1745 393 T F E P R D R S V 14 1746 403 G L D S F C N L E 14 1747 518 V D D E Q V K T I 14 1748 561 L A E C D I I D I 14 1749 563 E C D I I D I P Q 14 1750 26 L V D I Y G S V P 13 1751 44 G T P C V D I Y I 13 1752 55 N N E R C R E R A 13 1753 73 T L E I I V V N N 13 1754 118 S L D C D L N C E 13 1755 128 R Q D R N F V D K 13 1756 143 P S G Y C G I L L 13 1757 144 S G Y G G I L L V 13 1758 194 F D D H K L V L H 13 1759 205 S Y D A K R A Q V 13 1760 245 D F E R F F V F G 13 1761 305 P L E V Y V C R V 13 1762 362 K T L P V V F D S 13 1763 367 V F D S P R N G E 13 1764 455 V Q P P V E L F V 13 1765 480 A P D G K G F R H 13 1766 500 F Q E K Q K C G H 13 1767 517 V V D D E Q V K T 13 1768 526 I S I N Q V L S N 13 1769 634 F T P Y H M L H G 13 1770 33 V P E C T E M F E 12 1771 39 M F E V Y G T P G 12 1772 84 S N D L N D S H V 12 1773 133 F V D K R Q W V W 12 1774 176 D L E D M S V M V 12 1775 177 L F D M S V M V L 12 1776 231 G Q D K V S Y E V 12 1777 250 F V E C L S F P D 12 1778 271 L L D D S N E D F 12 1779 275 S N E D F S A S P 12 1780 323 V A E L A R K A G 12 1781 351 E M E L G Y V Q A 12 1782 386 G P D F C Y V T R 12 1783 409 N L E V S P P V V 12 1784 412 V S P P V V A N G 12 1785 471 V D E F L S F V P 12 1786 519 D D E Q V K T I S 12 1787 547 C I D W N R F V L 12 1788 556 K R E L G L A F C 12 1789 612 C L E E K V R S L 12 1790 47 C V D I Y I S P N 11 1791 62 R A D T R R W R F 11 1792 87 L N D S H V Q I S 11 1793 124 N C E G R Q D F N 11 1794 155 D R D D P S C D V 11 1795 163 V Q D N C D Q H V 11 1796 166 N C D Q H V H C L 11 1797 243 H G D E E R F F V 11 1798 300 P S T L P P L E V 11 1799 339 Q A E N R N D R W 11 1800 376 L Q D F P Y K R I 11 1801 396 P R D R S V S G L 11 1802 420 G K E Y P L G R I 11 1803 428 I L I G G N L P G 11 1804 446 V R D F L H A Q K 11 1805 458 P V E L F V D W L 11 1806 462 F V D W L A V G H 11 1807 534 N K D L I N Y N K 11 1808 630 F I D D F T P Y H 11 1809 59 G R E R A D T R R 10 1810 69 R F D A T L E I I 10 1811 81 N S P S N D L N D 10 1812 97 H S S H E P L P L 10 1813 114 C V D I S L D C D 10 1814 117 I S L D C D L N C 10 1815 120 D C D L N C E G R 10 1816 153 N C D R D D P S C 10 1817 174 L Q D L E D M S V 10 1818 186 R T Q G P A A L F 10 1819 187 T Q G P A A L F D 10 1820 219 P E D V C E A Y R 10 1821 272 L D D S N E D F S 10 1822 276 N E D F S A S P I 10 1823 297 I M T P S T L P P 10 1824 343 R N D R W I Q D E 10 1825 349 Q D E M E L G Y V 10 1826 370 S P R N G E L Q D 10 1827 442 V T Q V V R D F L 10 1828 470 H V D E F L S F V 10 1829 551 N R E V L K R E L 10 1830 618 R S L L E P L G L 10 1831 631 I D D F T P Y H M 10 1832 641 H C E V H C C T N 10 1833 31 C S V P E C T E M 9 1834 98 S S H E P L P L A 9 1835 111 Y L T C V D I S L 9 1836 171 V H C L Q D L E D 9 1837 202 H T S S Y D A K R 9 1838 235 V S Y E V P R L H 9 1839 280 S A S P I F T D T 9 1840 316 N T C F V D A V A 9 1841 392 V T R E P R D R S 9 1842 404 L D S F C N L E V 9 1843 422 E Y P L C R I L I 9 1844 423 Y P L C R I L I G 9 1845 444 Q V V R D F L H A 9 1846 469 G H V D E F L S F 9 1847 506 C G H G R A L L F 9 1848 549 D W N R E V L K R 9 1849 580 A T A F F P D L V 9 1850 5 R I V R V S L E H 8 1851 1 P T S A V C V A G 8 1852 20 V A G V E T L V D 8 1853 72 A T L E I I V V M 8 1854 10 P L A Y A V L Y L 8 1855 112 L T C V D I S L D 8 1856 145 G Y G G I L L V N 8 1857 254 L S F P D A G F T 8 1858 266 S F H V T L L D D 8 1859 38 I L G P D F G Y V 8 1860 45 K V Q P P V E L F 8 1861 483 G K G F R M L L A 8 1862 491 A S P G A C F K L 8 1863 524 K T I S I N Q V L 8 1864 531 V L S N K D L I N 8 1865 567 I D I P Q L F K T 8 1866 581 T A F F P D L V N 8 1867 614 E E K V R S L L E 8 1868 625 C L H C T F I D D 8 1869 23 V E T L V D I Y G 7 1870 64 D T R R W R F D A 7 1871 80 M N S P S N D L N 7 1872 106 A Y A V L Y L T C 7 1873 179 D M S V M V L R T 7 1874 195 D D H K L V L H T 7 1875 224 F A Y R H V L G Q 7 1876 248 R F F V E G L S F 7 1877 258 D A G F T C L I S 7 1878 259 A C F T C L I S F 7 1879 261 F T G L I S F H V 7 1880 269 V T L L D D S N E 7 1881 274 D S N E D F S A S 7 1882 287 D T V V F R V A P 7 1883 291 F R V A P W I M T 7 1884 320 V D A V A E L A R 7 1885 328 R K A C C K L T I 7 1886 334 L T I C P Q A E N 7 1887 357 V Q A P H K T L P 7 1888 369 D S P R N G E L Q 7 1889 378 D F P Y K R I L G 7 1890 379 F P Y K R I L G P 7 1891 398 D R S V S G L D S 7 1892 419 N C K E Y P L C R 7 1893 437 S S G R R V T Q V 7 1894 460 E L F V D W L A V 7 1895 492 S P G A C F K L F 7 1896 555 L K R E L G L A E 7 1897 585 P D L V N M L V L 7 1898 587 L V N M L V L G K 7 1899 591 L V L G K H L G I 7 1900 633 D F T P Y H M L H 7 1901 647 G T N V C R K P F 7 1902 24 E T L V D T Y G S 6 1903 51 Y I S P N M E R G 6 1904 68 W R F D A T L S I 6 1905 89 D S H V Q I S Y H 6 1906 113 T C V D I S L D C 6 1907 140 V W G P S G Y C G 6 1908 159 P S C D V Q D N C 6 1909 168 D Q H V H C L Q D 6 1910 180 M S V M V L R T Q 6 1911 204 S S Y D A K R A Q 6 1912 237 Y E V P R L H G D 6 1913 279 F S A S P I F T D 6 1914 286 T D T V V F R V A 6 1915 298 M T P S T L P P L 6 1916 335 T I C P Q A S N R 6 1917 358 Q A P H K T L P V 6 1918 363 T L P V V F D S P 6 1919 368 F D S P R N C S L 6 1920 399 R S V S G L D S F 6 1921 405 D S F G N L E V S 6 1922 411 E V S P P V V A N 6 1923 432 G N L P G S S C R 6 1924 436 G S S C R R V T Q 6 1925 476 S F V P A P D C K 6 1926 478 V P A P D G K G F 6 1927 481 P D G K G F R M L 6 1928 484 K C F R M L L A S 6 1929 490 L A S P C A C F K 6 1930 493 P G A C F K L F Q 6 1931 507 G H G R A L L F Q 6 1932 511 A L L F Q G V V D 6 1933 553 S V L K R E L G L 6 1934 600 P K P F G P I I N 6 1935 601 K P F G P I I N G 6 1936 607 I N G C C C L E E 6 1937 615 E K V R S L L S P 6 1938 619 S L L E P L C L H 6 1939 628 C T F I D D F T P 6 1940 651 C R K P F S F K W 6 1941 655 F S F K W W N M V 6 1942 2 S L Q R I V R V S 5 1943 9 V S L E H P T S A 5 1944 11 L E H P T S A V C 5 1945 15 T S A V C V A G V 5 1946 16 S A V C V A G V E 5 1947 19 C V A G V E T L V 5 1948 32 S V P E G T E M F 5 1949 70 F D A T L S I I V 5 1950 71 D A T L S I I V V 5 1951 83 P S N D L N D S H 5 1952 184 V L R T Q G P A A 5 1953 209 K R A Q V F H I C 5 1954 281 A S P I F T D T V 5 1955 302 T L P P L E V Y V 5 1956 309 Y V C R V R N N T 5 1957 327 A R K A G C K L T 5 1958 330 A G C K L T I C P 5 1959 377 Q D F P Y K R I L 5 1960 401 V S G L D S F G N 5 1961 402 S G L D S F C N L 5 1962 421 K S Y P L G R I L 5 1963 424 P L G R I L I C G 5 1964 427 R I L I G G N L P 5 1965 438 S G R R V T Q V V 5 1966 459 V E L F V D W L A 5 1967 475 L S F V P A P D G 5 1968 505 K C C H G R A L L 5 1969 560 G L A E C D I I D 5 1970 582 A F F P D L V N M 5 1971 588 V N M L V L G K H 5 1972 590 M L V L C K H L G 5 1973 593 L G K H L G I P K 5 1974 599 I P K P F G P I I 5 1975 650 V C R K P F S F K 5 1976 1 M S L Q R I V R V 4 1977 18 V C V A G V E T L 4 1978 46 P C V D I Y I S P 4 1979 52 I S P N M E R G R 4 1980 94 I S Y H S S H E P 4 1981 96 Y H S S H E P L P 4 1982 101 F P L P L A Y A V 4 1983 105 L A Y A V L Y L T 4 1984 167 C D Q H V H C L Q 4 1985 178 E D M S V M V L R 4 1986 192 A L F D D H K L V 4 1987 203 T S S Y D A K R A 4 1988 208 A K R A Q V F H I 4 1989 210 R A Q V F H I C G 4 1990 216 I C G P E D V C E 4 1991 227 R H V L G Q D K V 4 1992 228 H V L G Q D K V S 4 1993 247 E R F F V E G L S 4 1994 251 V E G L S F P D A 4 1995 262 T G L I S F H V T 4 1996 278 D F S A S P I F T 4 1997 292 R V A P W I M T P 4 1998 342 N R N D R W I Q D 4 1999 397 R D R S V S C L D 4 2000 413 S P P V V A N G K 4 2001 435 P G S S G R R V T 4 2002 449 F L H A Q K V Q P 4 2003 452 A Q K V Q P P V E 4 2004 464 D W L A V G H V D 4 2005 474 F L S F V P A P D 4 2006 477 F V P A P D G K G 4 2007 482 D G K C F R M L L 4 2008 495 A C F K L F Q E K 4 2009 512 L L F Q G V V D D 4 2010 513 L F Q G V V D D E 4 2011 520 D E Q V K T I S I 4 2012 522 Q V K T I S I N Q 4 2013 527 S I N Q V L S N K 4 2014 540 Y N K F V Q S C I 4 2015 542 K F V Q S C I D W 4 2016 545 Q S C I D W N R E 4 2017 554 V L K R S L G L A 4 2018 594 C K H L G I P K P 4 2019 597 L C I P K P F C P 4 2020 598 G I P K P F C P I 4 2021 602 P F G P I I N C C 4 2022 637 Y H M L H C S V H 4 2023 646 C C T N V C R K P 4 2024 656 S F K W W N M V P 4 2025 3 L Q R I V R V S L 3 2026 4 Q R I V R V S L E 3 2027 27 V D I Y G S V P E 3 2028 30 Y C S V P E C T E 3 2029 40 F E V Y G T P C V 3 2030 42 V Y G T P C V D I 3 2031 53 S P N M E R G R E 3 2032 65 T R R W R F D A T 3 2033 74 L E I I V V M N S 3 2034 107 Y A V L Y L T C V 3 2035 123 L N C E G R Q D R 3 2036 129 Q D R N F V D K R 3 2037 134 V D K R Q W V W G 3 2038 142 G P S G Y G G I L 3 2039 148 G I L L V N C D R 3 2040 181 S V M V L R T Q G 3 2041 189 G P A A L F D D H 3 2042 191 A A L F D D H K L 3 2043 206 Y D A K R A Q V F 3 2044 214 F H I C G P E D V 3 2045 215 H I C G P E D V C 3 2046 225 A Y R H V L G Q D 3 2047 226 Y R H V L G Q D K 3 2048 249 F F V E G L S F P 3 2049 255 S F P D A G F T G 3 2050 257 P D A G F T G L I 3 2051 264 L I S F H V T L L 3 2052 282 S P I F T D T V V 3 2053 289 V V F R V A P W I 3 2054 296 W I M T P S T L P 3 2055 306 L E V Y V C R C R 3 2056 314 R N N T C F V D A 3 2057 322 A V A E L A R K A 3 2058 326 L A R K A G C K L 3 2059 345 D R W I Q D E M E 3 2060 352 M E L G Y V Q A P 3 2061 353 E L G Y V Q A P H 3 2062 356 Y V Q A P H K T L 3 2063 374 G E L Q D F P Y K 3 2064 375 E L Q D F P Y K R 3 2065 381 Y K R I L G P D F 3 2066 387 P D F G Y N T R E 3 2067 400 S V S G L D S F G 3 2068 414 P P V V A M G K E 3 2069 416 V V A N G K E Y P 3 2070 418 A N G K E Y P L G 3 2071 440 R R V T Q V V R D 3 2072 441 R V T Q V V R D F 3 2073 457 P P V E L F V D M 3 2074 465 W L A V G H V D E 3 2075 467 A V G H V D E F L 3 2076 468 V G H V D E F L S 3 2077 472 D E F L S F V P A 3 2078 489 L L A S P G A C F 3 2079 497 F K L F Q E K Q K 3 2080 498 K L F Q E K Q K C 3 2081 509 G R A L L F Q C V 3 2082 514 F Q G V V D D E Q 3 2083 536 D L I N Y N K F V 3 2084 538 I N Y N K F V Q S 3 2085 546 S C I D W N R E V 3 2086 552 R E V L K R E L G 3 2087 568 D I P Q L F K T E 3 2088 571 Q L F K T E R K K 3 2089 572 L F K T E R K K A 3 2090 578 K K A T A F F P D 3 2091 579 K A T A F F P D L 3 2092 583 F F P D L V N M L 3 2093 586 D L V N M L V L G 3 2094 606 I I N G C C C L E 3 2095 617 V R S L L E P L G 3 2096 639 M L H G E V H C G 3 2097 643 E V H C G T N V C 3 2098 644 V H C G T N V C R 3 2099 652 R K P F S F K W W 3 2100 13 H P T S A V C V A 2 2101 17 A V C V A G V E T 2 2102 28 D I Y G S V P E G 2 2103 29 I Y G S V P E G T 2 2104 38 E M F E V Y G T P 2 2105 41 E V Y C T P G V D 2 2106 50 I Y I S P N M F R 2 2107 67 R W R F D A T L E 2 2108 75 F I I V V M N S P 2 2109 79 V M N S P S N D L 2 2110 82 S P S N D L N D S 2 2111 90 S H V Q I S Y H S 2 2112 92 V Q I S Y H S S H 2 2113 95 S Y H S S H E P L 2 2114 102 P L P L A Y A V L 2 2115 108 A V L Y L T C V D 2 2116 109 V L Y L T C V D I 2 2117 116 D I S L D C D L N 2 2118 122 D L N C E G R Q D 2 2119 125 C E G R Q D R N F 2 2120 127 G R Q D R N F V D 2 2121 130 D R N F V D K R Q 2 2122 136 K R Q W V W C P S 2 2123 139 W V W G P S G Y G 2 2124 141 W C P S G Y C G I 2 2125 146 Y G G I L L V N C 2 2126 165 D N C D Q H V H C 2 2127 170 H V H C L Q D L E 2 2128 173 C L Q D L E D M S 2 2129 185 L R T Q G P A A L 2 2130 196 D H K L V L H T S 2 2131 200 V L H T S S Y D A 2 2132 213 V F H I C G P E D 2 2133 223 C E A Y R H V L G 2 2134 239 V P R L H G D E E 2 2135 240 P R L H C D E E R 2 2136 241 R L H G D E E R F 2 2137 253 G L S F P D A G F 2 2138 299 T P S T L P P L E 2 2139 303 L P P L E V Y V C 2 2140 304 P P L F V Y V C R 2 2141 308 V Y V C R V R N N 2 2142 310 V C R V R N N T C 2 2143 313 V R N N T C F V D 2 2144 347 W I Q D E M E L G 2 2145 350 D E M E L G Y V Q 2 2146 354 L G Y V Q A P H K 2 2147 355 G Y V Q A P H K T 2 2148 359 A P H K T L P V V 2 2149 361 H K T L P V V F D 2 2150 382 K R I L G P D F G 2 2151 385 L G P D F G Y V T 2 2152 388 D F G Y V T R E P 2 2153 389 F G Y V T R E P R 2 2154 391 Y V T R E P R D R 2 2155 394 R E P R D R S V S 2 2156 406 S F G N L E V S P 2 2157 407 F G N L E V S P P 2 2158 408 G N L E V S P P V 2 2159 410 L F V S P P v V A 2 2160 417 V A N G K E Y P L 2 2161 431 G G N L P G S S G 2 2162 433 N L P G S S G R R 2 2163 443 T Q V V R D F L H 2 2164 447 R D F L H A Q K V 2 2165 451 H A Q K V Q P P V 2 2166 463 V D W L A V G H V 2 2167 466 L A V G H V D E F 2 2168 479 P A P D G K G F R 2 2169 496 C F K L F Q E K Q 2 2170 503 K Q K C G H G R A 2 2171 504 Q K C G H G R A L 2 2172 525 T I S I N Q V L S 2 2173 528 I N Q V L S N K D 2 2174 530 Q V L S N K D L I 2 2175 533 S N K D L I N Y N 2 2176 535 K D L I N Y N K F 2 2177 541 N K F V Q S C I D 2 2178 548 I D W N R E V L K 2 2179 550 W N R E V L K R E 2 2180 565 D I I D I P Q L F 2 2181 592 V L G K H L G I P 2 2182 596 H L G I P K P F G 2 2183 603 F G P I I N C C C 2 2184 605 P I I N C C C C L 2 2185 609 G C C C L E E K V 2 2186 621 L E P L G L H C T 2 2187 632 D D F T P Y H M L 2 2188 638 H M L H G E V H C 2 2189 640 L H G E V H C G T 2 2190 7 V R V S L E H P T 1 2191 21 A C V E T L V D I 1 2192 25 T L V D I Y G S V 1 2193 37 T E M F E V Y C T 1 2194 48 V D I Y I S P N M 1 2195 49 D I Y I S P N M E 1 2196 54 P N M E R G R E R 1 2197 56 M E R G R E R A D 1 2198 57 E R G R E R A D T 1 2199 61 E R A D T R R W R 1 2200 63 A D T R R W R F D 1 2201 76 I I V V M N S P S 1 2202 78 V V M N S P S N D 1 2203 85 N D L N D S H V Q 1 2204 86 D L N D S H V Q I 1 2205 100 H E P L P L A Y A 1 2206 110 L Y L T C V D I S 1 2207 115 V D I S L D C D L 1 2208 119 L D C D L N C E G 1 2209 126 E G R Q D R N F V 1 2210 132 N F V D K R Q W V 1 2211 135 D K R Q W V W G P 1 2212 137 R Q W V W G P S G 1 2213 147 C C I L L V N C D 1 2214 149 I L L V N C D R D 1 2215 150 L L V N C D R D D 1 2216 151 L V N C D R D D P 1 2217 152 V N C D R D D P S 1 2218 158 D P S C D V Q D N 1 2219 161 C D V Q D N C D Q 1 2220 164 Q D N C D Q H V H 1 2221 175 Q D L E D M S V M 1 2222 182 V M V L R T Q G P 1 2223 211 A Q V F H I C G P 1 2224 217 C G P E D V C E A 1 2225 230 L G Q D K V S Y E 1 2226 232 Q D K V S Y E V P 1 2227 233 D K V S Y E V P R 1 2228 234 K V S Y E V P R L 1 2229 246 E E R F F V E C L 1 2230 260 C F T G L I S F H 1 2231 263 C L I S F H V T L 1 2232 267 F H V T L L D D S 1 2233 270 T L L D D S N E D 1 2234 283 P I F T D T V V F 1 2235 284 I F T D T V V F R 1 2236 288 T V V F R V A P W 1 2237 290 V F R V A P W I M 1 2238 293 V A P W I M T P S 1 2239 294 A P W I M T P S T 1 2240 307 E V Y V C R V R N 1 2241 311 C R V R N N T C F 1 2242 315 N N T C F V D A V 1 2243 318 C F V D A V A E L 1 2244 324 A E L A R K A G C 1 2245 325 E L A R K A C C K 1 2246 333 K L T I C P Q A E 1 2247 337 C P Q A E N R N D 1 2248 338 P Q A E N R N D R 1 2249 340 A E N R N D R W I 1 2250 341 E N R N D R W I Q 1 2251 360 P H K T L P V V F 1 2252 366 V V F D S P R N G 1 2253 371 P R N G E L Q D F 1 2254 426 C R I L I C G N L 1 2255 429 L I G G N L P G S 1 2256 434 L P G S S G R R V 1 2257 439 G R R V T Q V V R 1 2258 445 V V R D F L H A Q 1 2259 448 D F L H A Q K V Q 1 2260 450 L H A Q K V Q P P 1 2261 453 Q K V Q P P V E L 1 2262 456 Q P P V E L F V D 1 2263 461 L F V D W L A V G 1 2264 473 E F L S F V P A P 1 2265 486 F R M L L A S P G 1 2266 488 M L L A S P G A C 1 2267 502 E K Q K C G H G R 1 2268 510 R A L L F Q G V V 1 2269 516 G V V D D E Q V K 1 2270 523 V K T I S I N Q V 1 2271 529 N Q V L S N K D L 1 2272 537 L I N Y N K F V Q 1 2273 539 N Y N K F V Q S C 1 2274 543 F V Q S C I D W N 1 2275 544 V Q S C I D W N R 1 2276 557 R E L G L A E C D 1 2277 558 E L G L A E C D I 1 2278 562 A E C D I I D I P 1 2279 573 F K T E R K K A T 1 2280 589 N M L V L G K H L 1 2281 595 K H L G I P K P F 1 2282 604 G P I I N G C C C 1 2283 610 C C C L E E K V R 1 2284 622 E P L G L H C T F 1 2285 623 P L G L H C T F I 1 2286 642 G E V H C G T N V 1 2287 645 H C G T N V C R K 1 2288 184P1E2 v.2: HLA Peptide Scoring Results A1 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 6 S T L A P L E V Y 25 2289 2 I M T P S T L A P 10 2290 5 P S T L A P L E V 10 2291 3 M T P S T L A P L 6 2292 7 T L A P L E V Y V 5 2293 1 W I M T P S T L A 3 2294 9 A P L E V Y V C R 3 2295 4 T P S T L A P L E 2 2296 8 L A P L E V Y V C 2 2297 184P1E2 v.3: HLA Peptide Scoring Results A1 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 9 V P D G K G F R M 13 2298 5 S F V P V P D G K 8 2299 4 L S F V P V P D G 6 2300 7 V P V P D G K G F 6 2301 3 F L S F V P V P D 4 2302 6 F V P V P D G K G 4 2303 1 D E F L S F V P V 3 2304 2 E F L S F V P V P 2 2305 8 P V P D G K G F R 2 2306

TABLE XXIII 184P1E2 v.1: HLA Peptide Scoring Results A0201 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 263 G L I S F H V T L 28 2307 612 C L E E K V R S L 28 2308 10 S L E H P T S A V 25 2309 302 T L P P L E V Y V 25 2310 384 I L G P D F G Y V 24 2311 25 T L V D I Y G S V 23 2312 104 P L A Y A V L Y L 23 2313 111 Y L T C V D I S L 23 2314 192 A L F D D H K L V 23 2315 264 L I S F H V T L L 23 2316 79 V M N S P S N D L 22 2317 109 V L Y L T C V D I 22 2318 144 S G Y C C I L L V 22 2319 86 D L N D S H V Q I 21 2320 107 Y A V L Y L T C V 21 2321 176 D L E D M S V M V 21 2322 305 P L E V Y V C R V 21 2323 470 H V D E F L S F V 21 2324 512 L L F Q C V V D D 21 2325 536 D L I N Y N K F V 21 2326 591 L V L C K H L C I 21 2327 619 S L L E P L C L H 21 2328 72 A T L E I I V V M 20 2329 191 A A L F D D H K L 20 2330 409 N L E V S P P V V 20 2331 417 V A N C K E Y P L 20 2332 460 E L F V D W L A V 20 2333 589 N M L V L C K H L 20 2334 616 K V R S L L E P L 20 2335 15 T S A V C V A C V 19 2336 18 V C V A C V E T L 19 2337 102 P L P L A Y A V L 19 2338 234 K V S Y E V P R L 19 2339 285 F T D T V V F R V 19 2340 298 M T P S T L P P L 19 2341 318 C F V D A V A E L 19 2342 428 I L I G G N L P G 19 2343 605 P I I N G C C C L 19 2344 1 M S L Q R I V R V 18 2345 19 C V A G V E T L V 18 2346 21 A G V F T L V D I 18 2347 326 L A R K A G C K L 18 2348 356 Y V Q A P H K T L 18 2349 358 Q A P H K T L P V 18 2350 429 L I G C N L P G S 18 2351 54 C I D W N R E V L 18 2352 55 V L K R E L G L A 18 2353 580 A T A F F P D L V 18 2354 583 F F P D L V N M L 18 2355 598 G I P K P F G P I 18 2356 28 D I Y G S V P E G 17 2357 118 S L D C D L N C E 17 2358 184 V L R T Q G P A A 17 2359 281 A S P I F T D T V 17 2360 322 A V A E L A R K A 17 2361 359 A P H K T L P V V 17 2362 489 L L A S P C A C F 17 2363 510 R A L L F Q C V V 17 2364 524 K T I S I N Q V L 17 2365 546 S C I D W N R B V 17 2366 561 L A E C D I I D I 17 2367 564 C D I I D I P Q L 17 2368 639 M L H C E V H C G 17 2369 2 S L Q R I V R V S 16 2370 3 L Q R I V R V S L 16 2371 40 F E V Y C T P G V 16 2372 66 R R W R F D A T L 16 2373 71 D A T L S I I V V 16 2374 105 L A Y A V L Y L T 16 2375 177 L E D M S V M V L 16 2376 179 D M S V M V L R T 16 2377 185 L R T Q G P A A L 16 2378 200 V L H T S S Y D A 16 2379 270 T L L D D S N E D 16 2380 312 R V R N N T C F V 16 2381 404 L D S F G N B E V 16 2382 408 C N B E V S P P V 16 2383 437 S S G R R V T Q V 16 2384 463 V D W L A V C H V 16 2385 465 W L A V G H V D E 16 2386 467 A V G H V D E F L 16 2387 487 R M L L A S P G A 16 2388 491 A S P G A C F K L 16 2389 518 V D D H Q V K T I 16 2390 567 I D I P Q L F K T 16 2391 579 K A T A F F P D L 16 2392 44 G T P G V D I Y I 15 2393 68 W R F D A T L E I 15 2394 73 T L E I I V V M N 15 2395 166 N C D Q H V H C L 15 2396 198 K L V L H T S S Y 15 2397 205 S Y D A K R A Q V 15 2398 214 F H I C G P E D V 15 2399 221 D V C E A Y R H V 15 2400 229 V L G Q D K V S Y 15 2401 261 F T C L I S F H V 15 2402 289 V V F R V A P W I 15 2403 301 S T L P P L E V Y 15 2404 315 N N T C F V D A V 15 2405 328 R K A G C K L T I 15 2406 368 F D S P R N G E L 15 2407 402 S G L D S F G N L 15 2408 421 K E Y P L C R I L 15 2409 442 V T Q V V R D F L 15 2410 451 H A Q K V Q P P V 15 2411 453 Q K V Q P P V E L 15 2412 458 P V E L F V D W L 15 2413 505 K C G H G R A L L 15 2414 509 G R A L L F Q G V 15 2415 511 A L L F Q C V V D 15 2416 523 V K T I S I N Q V 15 2417 527 S I N Q V L S N K 15 2418 553 E V L K R E L G L 15 2419 558 E L C L A E C D I 15 2420 560 C L A E C D I I D 15 2421 582 A F F P D L V N M 15 2422 586 D L V N M L V L G 15 2423 592 V L G K H L C I P 15 2424 620 L L E P L C L H C 15 2425 623 P L G L H C T F I 15 2426 17 A V C V A G V H T 14 2427 70 F D A T L H I I V 14 2428 98 S S H F P L P L A 14 2429 101 E P L P L A Y A V 14 2430 115 V D I S L D C D L 14 2431 142 G P S C Y C G I L 14 2432 149 I L L V N C D R D 14 2433 169 Q H V H C L Q D L 14 2434 174 L Q D L E D M S V 14 2435 193 L F D D H K L V L 14 2436 208 A K R A Q V F H I 14 2437 227 R H V L G Q D K V 14 2438 231 G Q D K V S Y E V 14 2439 253 G L S F P D A G F 14 2440 256 F P D A G F T G L 14 2441 292 R V A P W I M T P 14 2442 297 I M T P S T L P P 14 2443 346 R W I Q D E M E L 14 2444 377 Q D F P Y K R I L 14 2445 383 R I L G P D F G Y 14 2446 438 S G R R V T Q V V 14 2447 455 V Q P P V E L F V 14 2448 466 L A V G H V D E F 14 2449 498 K L F Q S K Q K C 14 2450 517 V V D D E Q V K T 14 2451 530 Q V L S N K D L I 14 2452 587 L V N M L V L G K 14 2453 609 G C C C L E E K V 14 2454 618 R S L L S P L C L 14 2455 630 F I D D F T P Y H 14 2456 638 H M L H C E V H C 14 2457 55 N M E R G R E R A 13 2458 271 L L D D S N S D F 13 2459 282 S P I F T D T V V 13 2460 334 L T I C P Q A S N 13 2461 349 Q D E M S L G Y V 13 2462 362 K T L P V V F D S 13 2463 393 T R S P R D R S V 13 2464 403 C L D S F G N L E 13 2465 426 G R I L I C C N L 13 2466 427 R I L I G C N L P 13 2467 445 V V R D F L H A Q 13 2468 447 R D F L H A Q K V 13 2469 449 F L H A Q K V Q P 13 2470 488 M L L A S P C A C 13 2471 504 Q K C C H C R A L 13 2472 531 V L S N K D L I N 13 2473 571 Q L F K T S R K K 13 2474 574 K T E R K K A T A 13 2475 590 M L V L C K H L G 13 2476 599 I P K P F C P I I 13 2477 606 I I N C C C C L E 13 2478 621 L E P L G L H C T 13 2479 655 F S F K W W N M V 13 2480 32 S V P 5 G T S M F 12 2481 42 V Y C T P G V D I 12 2482 51 Y I S P N M E R G 12 2483 69 R F D A T L E I I 12 2484 84 S N D L N D S H V 12 2485 95 S Y H S S H E P L 12 2486 132 N F V D K R Q W V 12 2487 150 L L V N C D R D D 12 2488 173 C L Q D L E D M S 12 2489 182 V M V L R T Q G P 12 2490 217 C G P E D V C E A 12 2491 222 V C E A Y R H V L 12 2492 241 R L H G D E E R F 12 2493 243 H G D E E R F F V 12 2494 246 E E R F F V E G L 12 2495 257 P D A G F T C L I 12 2496 280 S A S P I F T D T 12 2497 294 A P W I M T P S T 12 2498 351 E M E L G Y V Q A 12 2499 363 T L P V V F D S P 12 2500 375 E L Q D F P Y K R 12 2501 396 P R D R S V S C L 12 2502 420 C K E Y P L C K I 12 2503 424 P L G R I L I G G 12 2504 433 N L P G S S C R R 12 2505 434 L P G S S G S R V 12 2506 454 K V Q P P V E L F 12 2507 474 F L S F V P A P D 12 2508 520 D E Q V K T I S I 12 2509 551 N R E V L K R S L 12 2510 559 L G L A E C D I I 12 2511 566 I I D I P Q L F K 12 2512 596 H L G I P K P F G 12 2513 632 D D F T P Y H M L 12 2514 5 R I V R V S L E H 11 2515 9 V S L E H P T S A 11 2516 97 H S S H E P L P L 11 2517 100 H E P L P L A Y A 11 2518 141 W G P 5 G Y C G I 11 2519 148 C I L L V N C D R 11 2520 155 D R D D P S C D V 11 2521 163 V Q D N C D Q H V 11 2522 215 H I C G P 5 D V C 11 2523 259 A G F T G L I S F 11 2524 295 P W I M T P S T L 11 2525 309 Y V C R V R N N T 11 2526 333 K L T I C P Q A E 11 2527 340 A E N R N D R W I 11 2528 411 E V S P P V V A N 11 2529 423 Y P L G R I L I G 11 2530 481 D G K G F R M L L 11 2531 526 I S I N Q V L S N 11 2532 58 F P D L V N M L V 11 2533 613 L E E K V R S L L 11 2534 625 G L H C T F I D D 11 2535 642 G E V H C G T N V 11 2536 6 I V R V S L E H P 10 2537 37 T E M F E V Y G T 10 2538 38 E M F E V Y G T P 10 2539 47 G V D I Y I S P N 10 2540 75 E I I V V M N S P 10 2541 76 I I V V M N S P S 10 2542 108 A V L Y L T C V D 10 2543 112 L T C V D I S L D 10 2544 122 D L N C E G R Q D 10 2545 172 H C L Q D L E D M 10 2546 183 M V L R T Q G P A 10 2547 237 Y E V P R L H G D 10 2548 279 F S A S P I F T D 10 2549 283 P I F T D T V V F 10 2550 296 W I M T P S T L P 10 2551 300 P S T L P P L E V 10 2552 325 E L A R K A G G E 10 2553 329 K A G C K L T I C 10 2554 335 T I C P Q A E N R 10 2555 352 M E L G Y V Q A P 10 2556 485 C F R M L L A S P 10 2557 490 L A S P G A C F E 10 2558 515 Q G V V D D E Q V 10 2559 525 T I S I N Q V L S 10 2560 537 L I N Y N K F V Q 10 2561 556 K R E L G L A E C 10 2562 565 D I I D I P Q L F 10 2563 585 P D L V N M L V L 10 2564 594 G K H L G I P K P 10 2565 636 P Y H N L H C E V 10 2566 12 E H P T S A V C V 9 2567 22 C V E T L V D I Y 9 2568 24 E T L V D I Y C S 9 2569 31 G S V P E G T E H 9 2570 34 P E G T E M F E V 9 2571 43 Y G T P G V D I Y 9 2572 49 D I Y I S P N M E 9 2573 77 I V V M N S P S N 9 2574 146 Y G G I L L V N C 9 2575 147 G G I L L V N C D 9 2576 186 R T Q G P A A L F 9 2577 195 D D H K L V L H T 9 2578 202 H T S S Y D A K R 9 2579 249 F F V E G L S F P 9 2580 254 L S F P D A G F T 9 2581 288 T V V F R V A P W 9 2582 316 N T C F V D A V A 9 2583 319 F V D A V A E L A 9 2584 321 D A V A E L A R K 9 2585 347 W I Q D E N E L G 9 2586 376 L Q D F P Y K R I 9 2587 385 L G P D F G Y V T 9 2588 400 S V S G L D S F G 9 2589 410 L E V S P P V V A 9 2590 412 V S P P V V A N G 9 2591 416 V V A N G K E Y P 9 2592 444 Q V V R D F L H A 9 2593 450 L H A Q K V Q P P 9 2594 461 L F V D W L A V G 9 2595 462 F V D W L A V G H 9 2596 480 A P D G K G F R M 9 2597 481 P D G K G F R M L 9 2598 494 G A C F K L F Q E 9 2599 529 N Q V L S N K D L 9 2600 543 F V Q S C I D W N 9 2601 568 D I P Q L F K T E 9 2602 601 K P F G P I I N G 9 2603 640 L H G E V H C G T 9 2604 20 V A G V E T L V D 8 2605 74 L E I I V V M N S 8 2606 106 A Y A V L Y L T C 8 2607 110 L Y L T C V D I S 8 2608 114 C V D I S L D C D 8 2609 126 E G R Q D R N F V 8 2610 139 W V W C P S G Y G 8 2611 143 P S C Y C C I L L 8 2612 145 G Y C G I L L V N 8 2613 175 Q D L E D M S V M 8 2614 181 S V M V L R T Q G 8 2615 194 F D D H K L V L H 8 2616 199 L V L H T S S Y D 8 2617 22 E A Y R H V L G Q 8 2618 230 L G Q D K V S Y E 8 2619 284 I F T D T V V F R 8 2620 353 E L G Y V Q A P H 8 2621 355 G Y V Q A P H K T 8 2622 379 F P Y K R I L G P 8 2623 392 V T R E P R D R S 8 2624 399 R S V S C L D S F 8 2625 425 L G R I L I G G N 8 2626 432 G N L P G S S G R 8 2627 477 F V P A P D G K G 8 2628 484 K G F R M L L A S 8 2629 513 L F Q G V V D D E 8 2630 533 S N K D L I N Y N 8 2631 539 N Y N K F V Q S C 8 2632 540 Y N K F V Q S C I 8 2633 588 V N M L V L G K H 8 2634 597 L G I P K P F G P 8 2635 7 V R V S L E H P T 7 2636 8 R V S L E H P T S 7 2637 13 H P T S A V C V A 7 2638 26 L V D I Y G S V P 7 2639 29 I Y G S V P E G T 7 2640 36 G T E M F E V Y G 7 2641 48 V D I Y I S P N M 7 2642 50 I Y I S P N M E R 7 2643 64 D T R R W R F D A 7 2644 82 S P S N D L N D S 7 2645 91 H V Q I S Y H S S 7 2646 93 Q I S Y H S S H E 7 2647 103 L P L A Y A V L Y 7 2648 116 D I S L D C D L N 7 2649 129 Q D R N F V D K R 7 2650 151 L V N C D R D D P 7 2651 228 H V L C Q D K V S 7 2652 250 F V E G L S F P D 7 2653 260 G F T G L I S F H 7 2654 262 T G L I S F H V T 7 2655 266 S F H V T L L D D 7 2656 269 V T L L D D S N E 7 2657 275 S N E D F S A S P 7 2658 276 N E D F S A S P I 7 2659 287 D T V V F R V A P 7 2660 303 L P P L S V Y V C 7 2661 314 R N N T C F V D A 7 2662 324 A E L A R K A G C 7 2663 332 C K L T I C P Q A 7 2664 366 V V F D S P R N G 7 2665 406 S F G N L E V S P 7 2666 422 E Y P L G R I L I 7 2667 436 G S S G R R V T Q 7 2668 441 R V T Q V V R D F 7 2669 532 L S N K D L I N Y 7 2670 549 D W N R E V L K R 7 2671 555 L K R E L G L A E 7 2672 562 A E C D I I D I P 7 2673 626 L H C T F I D D F 7 2674 628 C T F I D D F T P 7 2675 635 T P Y H M L H G E 7 2676 649 N V C R K P F S F 7 2677 4 Q R I V R V S L E 6 2678 11 L E H P T S A V C 6 2679 16 S A V C V A G V E 6 2680 27 V D I Y C S V P E 6 2681 78 V V M N S P S N D 6 2682 87 L N D S H V Q I S 6 2683 92 V Q I S Y H S S H 6 2684 94 I S Y H S S H E P 6 2685 99 S H E P L P L A Y 6 2686 117 I S L D C D L N C 6 2687 119 L D C D L N C E G 6 2688 123 L N C S G R Q D R 6 2689 180 M S V M V L R T Q 6 2690 211 A Q V F H I C G P 6 2691 216 I C G P E D V C E 6 2692 225 A Y R H V L G Q D 6 2693 251 V E G L S F P D A 6 2694 265 I S F H V T L L D 6 2695 267 F H V T L L D D S 6 2696 268 H V T L L D D S N 6 2697 291 F R V A P W I M T 6 2698 327 A R K A G C K L T 6 2699 344 N D R W I Q D E M 6 2700 348 I Q D E M E L G Y 6 2701 361 H K T L P V V F D 6 2702 386 G P D F G Y V T R 6 2703 405 D S F G N L E V S 6 2704 407 F G N L E V S P P 6 2705 440 R R V T Q V V R D 6 2706 459 V E L F V D W L A 6 2707 472 D E F L S F V P A 6 2708 473 E F L S F V P A P 6 2709 495 A C F K L F Q E K 6 2710 503 K Q K C G H G R A 6 2711 507 G H G R A L L F Q 6 2712 516 G V V D D E Q V K 6 2713 528 I N Q V L S N K D 6 2714 535 K D L I N Y N K F 6 2715 538 I N Y N K F V Q S 6 2716 572 L F K T E R K K A 6 2717 573 F K T E R K K A T 6 2718 581 T A F F P D L V N 6 2719 608 N G C C C L E E K 6 2720 611 C C L E E K V R S 6 2721 624 L G L H C T F I D 6 2722 631 I D D F T P Y H M 6 2723 643 E V H C G T N V C 6 2724 30 Y G S V P E C T E 5 2725 45 T P G V D I Y I S 5 2726 65 T R R W R F D A T 5 2727 133 F V D K R Q W V W 5 2728 140 V W C P S G Y G G 5 2729 170 H V H C L Q D L E 5 2730 196 D H K L V L H T S 5 2731 197 H K L V L H T S S 5 2732 204 S S Y D A K R A Q 5 2733 210 R A Q V F H I C G 5 2734 212 Q V F H I C G P E 5 2735 255 S F P D A C F T G 5 2736 273 D D S N E D F S A 5 2737 290 V F R V A P W I M 5 2738 293 V A P W I M T P S 5 2739 308 V Y V C R V R N N 5 2740 320 V D A V A E L A R 5 2741 330 A G C K L T I C P 5 2742 357 V Q A P H K T L P 5 2743 370 S P R N C E L Q D 5 2744 382 K R I L G P D F G 5 2745 387 P D F G Y V T R E 5 2746 391 Y V T R E P R D R 5 2747 430 I G G N L P G S S 5 2748 431 G G N L P C S S G 5 2749 469 G H V D E F L S F 5 2750 475 L S F V P A P D G 5 2751 476 S F V P A P D C K 5 2752 478 V P A P D G K G F 5 2753 483 G K G F R M L L A 5 2754 508 H G R A L L F Q G 5 2755 548 I D W N R E V L K 5 2756 550 W N R E V L K R E 5 2757 557 R E L G L A E C D 5 2758 569 I P Q L F K T E R 5 2759 602 P F G P I I N C C 5 2760 607 I N G C C C L E E 5 2761 63 F T P Y H M L H G 5 2762 64 V H C G T N V C R 5 2763 647 G T N V C R K P F 5 2764 1 P T S A V C V A G 4 2765 41 E V Y G T P G V D 4 2766 58 R G R E R A D T R 4 2767 62 R A D T R R W R F 4 2768 135 D K R Q W V W G P 4 2769 137 R Q W V W G P S G 4 2770 162 D V Q D N C D Q H 4 2771 171 V H C L Q D L E D 4 2772 188 Q G P A A L F D D 4 2773 189 G P A A L F D D H 4 2774 190 P A A L F D D H K 4 2775 206 Y D A K R A Q V F 4 2776 207 D A K R A Q V F H 4 2777 209 K R A Q V F H I C 4 2778 213 V F H I C C P E D 4 2779 235 V S Y E V P R L H 4 2780 248 R F F V E G L S F 4 2781 307 E V Y V C R V R N 4 2782 310 V C R V R N N T C 4 2783 317 T C F V D A V A E 4 2784 323 V A E L A R K A G 4 2785 331 G C K L T I C P Q 4 2786 343 R N D R W I Q D E 4 2787 350 D E M E L G Y V Q 4 2788 354 L G Y V Q A P H K 4 2789 367 V F D S P R N C E 4 2790 371 P R N G E L Q D F 4 2791 374 G E L Q D F P Y K 4 2792 381 Y K R I L C P D F 4 2793 413 S P P V V A N G K 4 2794 419 N G K E Y P L C R 4 2795 456 Q P P V E L F V D 4 2796 479 P A P D C K G F R 4 2797 499 L F Q E K Q K C G 4 2798 595 K H L G I P K P F 4 2799 615 E K V R S L L E P 4 2800 622 E P L G L H C T F 4 2801 645 H C G T N V C R K 4 2802 651 C R K P F S F K W 4 2803 52 I S P N M E R G R 3 2804 53 S P N M E R G R E 3 2805 56 M E R G R E R A D 3 2806 57 E R G R E R A D T 3 2807 85 N D L N D S H V Q 3 2808 89 D S H V Q I S Y H 3 2809 90 S H V Q I S Y H S 3 2810 96 Y H S S H E P L P 3 2811 138 Q W V W G P S G Y 3 2812 153 N C D R D D P S C 3 2813 158 D P S C D V Q D N 3 2814 160 S C D V Q D N C D 3 2815 187 T Q C P A A L F D 3 2816 223 C E A Y R H V L G 3 2817 226 Y R H V L G Q D K 3 2818 236 S Y E V P R L H G 3 2819 239 V P R L H G D E E 3 2820 240 P R L H G D E E R 3 2821 242 L H G D F E R F F 3 2822 245 D E E R F F V E G 3 2823 258 D A G F T G L I S 3 2824 274 D S N E D F S A S 3 2825 278 D F S A S R I F T 3 2826 286 T D T V V F R V A 3 2827 304 P P L E V Y V C R 3 2828 336 I C P Q A E N R N 3 2829 339 Q A E N R N D R W 3 2830 364 L P V V F D S P R 3 2831 372 R N G E L Q D F P 3 2832 418 A N G K E Y P L G 3 2833 435 P G S S G R R V T 3 2834 439 G R R V T Q V V R 3 2835 446 V R D F L H A Q K 3 2836 486 F R M L L A S P G 3 2837 506 C G H G R A L L F 3 2838 514 F Q C V V D D S Q 3 2839 522 Q V K T I S I N Q 3 2840 578 K K A T A F F P D 3 2841 604 G P I I N G C C C 3 2842 617 V R S L L E P L G 3 2843 629 T F I D D F T P Y 3 2844 637 Y H N L H C F V H 3 2845 653 K P F S F K W W N 3 2846 33 V P E G T E M F E 2 2847 54 P N M E R G R E R 2 2848 60 R E R A D T R R W 2 2849 80 M N S P S N D L N 2 2850 83 P S N D L N D S H 2 2851 88 N D S H V Q I S Y 2 2852 113 T C V D I S L D C 2 2853 121 C D L N C E G R Q 2 2854 127 G R Q D R N F V D 2 2855 128 R Q D R N F V D K 2 2856 134 V D K R Q W V W G 2 2857 152 V N C D R D D P S 2 2858 156 R D D P S C D V Q 2 2859 164 Q D N C D Q H V H 2 2860 165 D N C D Q H V H C 2 2861 201 L H T S S Y D A K 2 2862 203 T S S Y D A K R A 2 2863 218 G P E D V C E A Y 2 2864 233 D K V S Y E V P R 2 2865 238 E V P R L H G D E 2 2866 244 G D E E R F F V E 2 2867 272 L D D S N E D F S 2 2868 299 T P S T L P P L E 2 2869 313 V R N N T C F V D 2 2870 338 P Q A E N R N D R 2 2871 342 N R N D R W I Q D 2 2872 388 D F G Y V T R E P 2 2873 389 F G Y V T R E P R 2 2874 390 G Y V T R E P R D 2 2875 395 E P R D R S V S G 2 2876 401 V S C L D S F C N 2 2877 415 P V V A N G K E Y 2 2878 452 A Q K V Q P P V E 2 2879 457 P P V E L F V D W 2 2880 464 D W L A V C H V D 2 2881 496 C F K L F Q E K Q 2 2882 575 T E R K K A T A F 2 2883 593 L G K H L C I P K 2 2884 627 H C T F I D D F T 2 2885 650 V C R K P F S F K 2 2886 63 A D T R R W R F D 1 2887 81 N S P S N D L N D 1 2888 124 N C E C R Q D K N 1 2889 131 R N F V D K R Q W 1 2890 136 K R Q W V W G P S 1 2891 154 C D R D D P S C D 1 2892 157 D D P S C D V Q D 1 2893 252 E G L S F P D A G 1 2894 306 L E V Y V C R V R 1 2895 365 P V V F D S P R N 1 2896 468 V G H V D E F L S 1 2897 492 S P G A C F K L F 1 2898 493 P G A C F K L F Q 1 2899 497 F K L F Q E K Q K 1 2900 500 F Q E K Q K C G H 1 2901 521 E Q V K T I S I N 1 2902 534 N K D L I N Y N K 1 2903 541 N K F V Q S C I D 1 2904 542 K F V Q S C I D W 1 2905 544 V Q S C I D W N R 1 2906 545 Q S C I D W N R E 1 2907 552 R E V L K R E L G 1 2908 570 P Q L F K T E R K 1 2909 603 F G P I I N G C C 1 2910 633 D F T P Y H M L H 1 2911 641 H G E V H C G T N 1 2912 646 C G T N V C R K P 1 2913 648 T N V C R K P F S 1 2914 654 P F S F K W W N M 1 2915 656 S F K W W N M V P 1 2916 67 R W R F D A T L E −1 2917 219 P E D V C E A Y R −1 2918 232 Q D K V S Y E V P −1 2919 277 E D F S A S P I F −1 2920 360 P H K T L P V V F −1 2921 369 D S P R N C F L Q −1 2922 373 N G E L Q D F P Y −1 2923 378 D F P Y K R I L G −1 2924 414 P P V V A N G K E −1 2925 502 E K Q K C G H G R −1 2926 577 R K K A T A F F P −1 2927 610 C C C L E E K V R −1 2928 35 E G T E M F E V Y −2 2929 130 D R N F V D K R Q −2 2930 159 P S C D V Q D N C −2 2931 220 E D V C E A Y R H −2 2932 519 D D E Q V K T I S −2 2933 600 P K P F G P I I N −2 2934 652 R K P F S F K W W −2 2935 247 E R F F V E G L S −3 2936 341 E N R N D R W I Q −3 2937 563 E C D I I D I P Q −3 2938 614 E E K V R S L L E −3 2939 184P1E2 v.2: HLA Peptide Scoring Results A0201 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 7 T LA P L E V Y V 27 2940 3 M TP S T L A P L 20 2941 2 I MT P S T L A P 15 2942 1 W IM T P S T L A 14 2943 6 S TL A P L E V Y 13 2944 8 L AP L E V Y V C 11 2945 5 P ST L A P L E V 9 2946 9 A PL E V Y V C R 8 2947 4 T PS T L A P L E 2 2948 184P1E2 v.3: HLA Peptide Scoring Results A0201 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 1 D EF L S F V P V 12 2949 3 F LS F V P V P D 12 2950 4 L SF V P V P D G 9 2951 6 F VP V P D G K G 8 2952 9 V PD G K G F R M 8 2953 2 E FL S F V P V P 5 2954 5 S FV P V P D G K 5 2955 8 P VP D G K G F R 4 2956 7 V PV P D G K G F 3 2957

TABLE XXIV 184P1E2: HLA Peptide Scoring Results A0202 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO DATA

TABLE XXV 184P1E2: HLA Peptide Scoring Results A0203 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO DATA

TABLE XXVI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results A3 9-mers SYFPEITHI 325 E L  A R K A G C K 29 2958 511 A L  L F Q G V V D 26 2959 198 K L  V L H T S S Y 25 2960 516 G V  V D D E Q V K 25 2961 566 I I  D I P Q L F K 24 2962 5 R I  V R V S L E H 23 2963 292 R V  A P W I M T P 23 2964 527 S I  N Q V L S N K 23 2965 587 L V  N M L V L G K 23 2966 41 E V  Y G T P G V D 22 2967 229 V L  G Q D K V S Y 22 2968 383 R I  L G P D F G Y 22 2969 428 I L  I G G N L P G 22 2970 571 Q L  F K T E R K K 22 2971 26 L V  D I Y G S V P 21 2972 58 R G  R E R A D T R 21 2973 128 R Q  D R N F V D K 21 2974 263 G L  I S F H V T L 21 2975 415 P V  V A N G K E Y 21 2976 462 F V  D W L A V G H 21 2977 489 L L  A S P G A C F 21 2978 649 N V  C R K P F S F 21 2979 17 A V  C V A G V E T 20 2980 241 R L  H C D E E R F 20 2981 283 P I  F T D T V V F 20 2982 427 R I  L I G G N L P 20 2983 454 K V  Q P P V E L F 20 2984 8 R V  S L E H P T S 19 2985 32 S V  P E G T F M F 19 2986 108 A V  L Y L T C V D 19 2987 109 V L  Y L T C V D I 19 2988 307 E V  Y V C R V R N 19 2989 441 R V  T Q V V R D F 19 2990 449 F L  H A Q K V Q P 19 2991 548 I D  W N R E V L K 19 2992 619 S L  L E P L G L H 19 2993 620 L L  E P L G L H C 19 2994 2 S L  Q R I V R V S 18 2995 86 D L  N D S H V Q I 18 2996 102 P L  P L A Y A V L 18 2997 162 D V  Q D N C D Q H 18 2998 228 H V  L G Q D K V S 18 2999 289 V V  F R V A P W I 18 3000 312 R V  R N N T C F V 18 3001 322 A V  A E L A R K A 18 3002 335 T I  C P Q A E N R 18 3003 353 E L  G Y V Q A P H 18 3004 391 Y V  T R E P R D R 18 3005 411 E V  S P P V V A N 18 3006 444 Q V  V R D F L H A 18 3007 490 L A  S P G A C F K 18 3008 591 L V  L G K H L G I 18 3009 103 L P  L A Y A V L Y 17 3010 184 V L  R T Q G P A A 17 3011 253 G L  S F P D A G F 17 3012 302 T L  P P L E V Y V 17 3013 354 L G  Y V Q A P H K 17 3014 433 N L  P G S S G R R 17 3015 465 W L  A V G H V D E 17 3016 488 M L  L A S P G A C 17 3017 553 E V  L K R E L G L 17 3018 565 D I  I D I P Q L F 17 3019 22 G V  E T L V D I Y 16 3020 73 T L  E I I V V M N 16 3021 122 D L  N C E G R Q D 16 3022 133 F V  D K R Q W V W 16 3023 148 G I  L L V N C D R 16 3024 176 D L  E D M S V M V 16 3025 181 S V  M V L R T Q G 16 3026 183 M V  L R T Q G P A 16 3027 186 R T  Q G P A A L F 16 3028 248 R F  F V E G L S F 16 3029 301 S T  L P P L E V Y 16 3030 319 F V  D A V A E L A 16 3031 333 K L  T I C P Q A E 16 3032 356 Y V  Q A P H K T L 16 3033 375 E L  Q D F P Y K R 16 3034 384 I L  G P D F G Y V 16 3035 400 S V  S G L D S F G 16 3036 446 V R  D F L H A Q K 16 3037 512 L L  F Q G V V D D 16 3038 616 K V  R S L L E P L 16 3039 643 E V  H C G T N V C 16 3040 650 V C  R K P F S F K 16 3041 6 I V  R V S L E H P 15 3042 10 S L  E H P T S A V 15 3043 19 C V  A G V E T L V 15 3044 49 D I  Y I S P N M E 15 3045 78 V V  M N S P S N D 15 3046 99 S H  E P L P L A Y 15 3047 199 L V  L H T S S Y D 15 3048 271 L L  D D S N E D F 15 3049 288 T V  V F R V A P W 15 3050 309 Y V  C R V R N N T 15 3051 321 D A  V A E L A R K 15 3052 394 R E  P R D R S V S 15 3053 409 N L  E V S P P V V 15 3054 413 S P  P V V A N G K 15 3055 439 G R  R V T Q V V R 15 3056 445 V V  R D F L H A Q 15 3057 474 F L  S F V P A P D 15 3058 476 S F  V P A P D G K 15 3059 497 F K  L F Q E K Q K 15 3060 517 V V  D D E Q V K T 15 3061 531 V L  S N K D L I N 15 3062 538 I N  Y N K F V Q S 15 3063 554 V L  K R E L G L A 15 3064 586 D L  V N M L V L G 15 3065 25 T L  V D I Y G S V 14 3066 28 D I  Y G S V P E G 14 3067 47 G V  D I Y I S P N 14 3068 66 R R  W R F D A T L 14 3069 72 A T  L E I I V V M 14 3070 75 E I  I V V M N S P 14 3071 77 I V  V M N S P S N 14 3072 104 P L  A Y A V L Y L 14 3073 138 Q W  V W G P S G Y 14 3074 149 I L  L V N C D R D 14 3075 192 A L  F D D H K L V 14 3076 206 Y D  A K R A Q V F 14 3077 215 H I  C G P E D V C 14 3078 238 E V  P R L H G D E 14 3079 328 R K  A G C K L T I 14 3080 360 P H  K T L P V V F 14 3081 386 G P  D F G Y V T R 14 3082 416 V V  A N G K E Y P 14 3083 432 G N  L P G S S G R 14 3084 460 E L  F V D W L A V 14 3085 467 A V  G H V D E F L 14 3086 470 H V  D E F L S F V 14 3087 506 C G  H G R A L L F 14 3088 530 Q V  L S N K D L I 14 3089 536 D L  I N Y N K F V 14 3090 574 K T  E R K K A T A 14 3091 593 L G  K H L G I P K 14 3092 605 P I  I N G C C C L 14 3093 612 C L  E E K V R S L 14 3094 76 I I  V V M N S P S 13 3095 91 H V  Q I S Y H S S 13 3096 93 Q I  S Y H S S H E 13 3097 111 Y L  T C V D I S L 13 3098 139 W V  W G P S G Y G 13 3099 212 Q V  F H I C G P E 13 3100 226 Y R  H V L G Q D K 13 3101 234 K V  S Y E V P R L 13 3102 268 H V  T L L D D S N 13 3103 270 T L  L D D S N E D 13 3104 363 T L  P V V F D S P 13 3105 370 S P  R N G E L Q D 13 3106 403 G L  D S F G N L E 13 3107 421 K E  Y P L G R I L 13 3108 424 P L  G R I L I G G 13 3109 436 G S  S G R R V T Q 13 3110 477 F V  P A P D G K G 13 3111 495 A C  F K L F Q E K 13 3112 498 K L  F Q E K Q K C 13 3113 522 Q V  K T I S I N Q 13 3114 525 T I  S I N Q V L S 13 3115 547 C I  D W N R E V L 13 3116 570 P Q  L F K T E R K 13 3117 575 T E  R K K A T A F 13 3118 590 M L  V L G K H L G 13 3119 630 F I  D D F T P Y H 13 3120 3 L Q  R I V R V S L 12 3121 92 V Q  I S Y H S S H 12 3122 144 S G  Y G G I L L V 12 3123 173 C L  Q D L E D M S 12 3124 175 Q D  L E D M S V M 12 3125 190 P A  A L F D D H K 12 3126 207 D A  K R A Q V F H 12 3127 250 F V  E G L S F P D 12 3128 304 P P  L E V Y V C R 12 3129 324 A E  L A R K A G C 12 3130 348 I Q  D E M E L G Y 12 3131 366 V V  F D S P R N G 12 3132 374 G E  L Q D F P Y K 12 3133 395 E P  R D R S V S G 12 3134 399 R S  V S G L D S F 12 3135 438 S G  R R V T Q V V 12 3136 458 P V  E L F V D W L 12 3137 464 D W  L A V G H V D 12 3138 510 R A  L L F Q G V V 12 3139 537 L I  N Y N K F V Q 12 3140 560 G L  A E C D I I D 12 3141 568 D I  P Q L F K T E 12 3142 595 K H  L G I P K P F 12 3143 606 I I  N G C C C L E 12 3144 622 E P  L G L H C T F 12 3145 623 P L  G L H C T F I 12 3146 637 Y H  M L H G E V H 12 3147 639 M L  H G E V H C G 12 3148 35 E G  T E M F E V Y 11 3149 43 Y G  T P G V D I Y 11 3150 51 Y I  S P N M E R G 11 3151 62 R A  D T R R W R F 11 3152 67 R W  R F D A T L E 11 3153 106 A Y  A V L Y L T C 11 3154 114 C V  D I S L D C D 11 3155 118 S L  D C D L N C E 11 3156 150 L L  V N C D R D D 11 3157 151 L V  N C D R D D P 11 3158 156 R D  D P S C D V Q 11 3159 201 L H  T S S Y D A K 11 3160 205 S Y  D A K R A Q V 11 3161 221 D V  C E A Y R H V 11 3162 225 A Y  R H V L G Q D 11 3163 235 V S  Y E V P R L H 11 3164 259 A G  F T G L I S F 11 3165 284 I F  T D T V V F R 11 3166 295 P W  I M T P S T L 11 3167 381 Y K  R I L G P D F 11 3168 478 V P  A P D G K G F 11 3169 526 I S  I N Q V L S N 11 3170 534 N K  D L I N Y N K 11 3171 543 F V  Q S C I D W N 11 3172 555 L K  R E L G L A E 11 3173 557 R E  L G L A E C D 11 3174 558 E L  G L A E C D I 11 3175 592 V L  G K H L G I P 11 3176 596 H L  G I P K P F G 11 3177 618 R S  L L E P L G L 11 3178 629 T F  I D D F T P Y 11 3179 4 Q R  I V R V S L E 10 3180 11 L E  H P T S A V C 10 3181 16 S A  V C V A G V E 10 3182 50 I Y  I S P N M E R 10 3183 54 P N  M E R G R E R 10 3184 129 Q D  R N F V D K R 10 3185 164 Q D  N C D Q H V H 10 3186 170 H V  H C L Q D L E 10 3187 200 V L  H T S S Y D A 10 3188 224 E A  Y R H V L G Q 10 3189 305 P L  E V Y V C R V 10 3190 351 E M  E L G Y V Q A 10 3191 365 P V  V F D S P R N 10 3192 382 K R  I L G P D F G 10 3193 419 N G  K E Y P L G R 10 3194 429 L I  G G N L P G S 10 3195 437 S S  G R R V T Q V 10 3196 469 G H  V D E F L S F 10 3197 484 K G  F R M L L A S 10 3198 524 K T  I S I N Q V L 10 3199 535 K D  L I N Y N K F 10 3200 549 D W  N R E V L K R 10 3201 577 R K  K A T A F F P 10 3202 582 A F  F P D L V N M 10 3203 608 N G  C C C L E E K 10 3204 625 G L  H C T F I D D 10 3205 644 V H  C G T N V C R 10 3206 645 H C  G T N V C R K 10 3207 27 V D  I Y G S V P E 9 3208 60 R E  R A D T R R W 9 3209 88 N D  S H V Q I S Y 9 3210 101 E P  L P L A Y A V 9 3211 116 D I  S L D C D L N 9 3212 134 V D  K R Q W V W G 9 3213 137 R Q  W V W G P S G 9 3214 145 G Y  G G I L L V N 9 3215 178 E D  M S V M V L R 9 3216 187 T Q  G P A A L F D 9 3217 194 F D  D H K L V L H 9 3218 216 I C  G P E D V C E 9 3219 218 G P  E D V C E A Y 9 3220 255 S F  P D A G F T G 9 3221 260 G F  T G L I S F H 9 3222 264 L I  S F H V T L L 9 3223 282 S P  I F T D T V V 9 3224 296 W I  M T P S T L P 9 3225 306 L E  V Y V C R V R 9 3226 310 V C  R V R N N T C 9 3227 320 V D  A V A E L A R 9 3228 347 W I  Q D E M E L G 9 3229 362 K T  L P V V F D S 9 3230 379 F P  Y K R I L G P 9 3231 389 F G  Y V T R E P R 9 3232 397 R D  R S V S G L D 9 3233 410 L E  V S P P V V A 9 3234 423 Y P  L G R I L I G 9 3235 431 G G  N L P G S S G 9 3236 452 A Q  K V Q P P V E 9 3237 480 A P  D G K G F R M 9 3238 505 K C  G H G R A L L 9 3239 556 K R  E L G L A E C 9 3240 585 P D  L V N M L V L 9 3241 598 G I  P K P F G P I 9 3242 599 I P  K P F G P I I 9 3243 610 C C  C L E E K V R 9 3244 1 M S  L Q R I V R V 8 3245 14 P T  S A V C V A G 8 3246 18 V C  V A G V E T L 8 3247 21 A G  V E T L V D I 8 3248 56 M E  R G R E R A D 8 3249 59 G R  E R A D T R R 8 3250 61 E R  A D T R R W R 8 3251 63 A D  T R R W R F D 8 3252 117 I S  L D C D L N C 8 3253 123 L N  C E G R Q D R 8 3254 154 C D  R D D P S C D 8 3255 193 L F  D D H K L V L 8 3256 208 A K  R A Q V F H I 8 3257 233 D K  V S Y E V P R 8 3258 240 P R  L H G D E E R 8 3259 281 A S  P I F T D T V 8 3260 297 I M  T P S T L P P 8 3261 311 C R  V R N N T C F 8 3262 314 R N  N T C F V D A 8 3263 316 N T  C F V D A V A 8 3264 317 T C  F V D A V A E 8 3265 327 A R  K A G C K L T 8 3266 346 R W  I Q D E M E L 8 3267 350 D E  M E L G Y V Q 8 3268 385 L G  P D F G Y V T 8 3269 406 S F  G N L E V S P 8 3270 426 G R  I L I G G N L 8 3271 440 R R  V T Q V V R D 8 3272 447 R D  F L H A Q K V 8 3273 461 L F  V D W L A V G 8 3274 479 P A  P D G K G F R 8 3275 485 G F  R M L L A S P 8 3276 504 Q K  C G H G R A L 8 3277 508 H G  R A L L F Q G 8 3278 567 I D  I P Q L F K T 8 3279 569 I P  Q L F K T E R 8 3280 576 E R  K K A T A F F 8 3281 597 L G  I P K P F G P 8 3282 633 D F  T P T H M L H 8 3283 638 H M  L H G E V H C 8 3284 9 V S  L E H P T S A 7 3285 12 E H  P T S A V C V 7 3286 20 V A  G V E T L V D 7 3287 31 G S  V P E G T E M 7 3288 38 E M  F E V Y G T P 7 3289 42 V Y  G T P G V D I 7 3290 52 I S  P N M E R G R 7 3291 57 E R  G R E R A D T 7 3292 64 D T  R R W R F D A 7 3293 83 P S  N D L N D S H 7 3294 85 N D  L N D S H V Q 7 3295 89 D S  H V Q I S Y H 7 3296 105 L A  Y A V L Y L T 7 3297 125 C E  G R Q D R N F 7 3298 127 G R  Q D R N F V D 7 3299 131 R N  F V D K R Q W 7 3300 157 D D  P S C D V Q D 7 3301 185 L R  T Q G P A A L 7 3302 189 G P  A A L F D D H 7 3303 196 D H  K L V L H T S 7 3304 202 H T  S S T D A K R 7 3305 204 S S  Y D A K R A Q 7 3306 219 P E  D V C E A Y R 7 3307 220 E D  V C E A Y R H 7 3308 222 V C  E A Y R H V L 7 3309 223 C E  A Y R H V L G 7 3310 227 R H  V L G Q D K V 7 3311 232 Q D  K V S Y E V P 7 3312 239 V P  R L H G D E E 7 3313 244 G D  E E R F F V E 7 3314 245 D E  E R F F V E G 7 3315 254 L S  F P D A G F T 7 3316 262 T G  L I S F H V T 7 3317 275 S N  E D F S A S P 7 3318 338 P Q  A E N R N D R 7 3319 340 A E  N R N D R W I 7 3320 343 R N  D R W I Q D E 7 3321 359 A P  H K T L P V V 7 3322 364 L P  V V F D S P R 7 3323 373 N G  E L Q D F P Y 7 3324 393 T R  E P R D R S V 7 3325 412 V S  P P V V A N G 7 3326 430 I G  G N L P G S S 7 3327 435 P G  S S G R R V T 7 3328 453 Q K  V Q P P V E L 7 3329 455 V Q  P P V E L F V 7 3330 486 F R  M L L A S P G 7 3331 487 R M  L L A S P G A 7 3332 492 S P  G A C F K L F 7 3333 502 E K  Q K C G H G R 7 3334 503 K Q  K C G H G R A 7 3335 552 R E  V L K R E L G 7 3336 564 C D  I I D I P Q L 7 3337 581 T A  F F P D L V N 7 3338 588 V N  M L V L G K H 7 3339 604 G P  I I N G C C C 7 3340 611 C C  L E E K V R S 7 3341 656 S F  K W W N M V P 7 3342 55 N M  E R G R E R A 6 3343 65 T R  R W R F D A T 6 3344 69 R F  D A T L E I I 6 3345 74 L E  I I V V M N S 6 3346 94 I S  Y H S S H E P 6 3347 140 V W  G P S G Y G G 6 3348 142 G P  S G Y G G I L 6 3349 168 D Q  H V H C L Q D 6 3350 214 F H  I C G P E D V 6 3351 249 F F  V E G L S F P 6 3352 258 D A  G F T G L I S 6 3353 265 I S  F H V T L L D 6 3354 269 V T  L L D D S N E 6 3355 276 N E  D F S A S P I 6 3356 287 D T  V V F R V A P 6 3357 294 A P  W I M T P S T 6 3358 326 L A  R K A G C K L 6 3359 334 L T  I C P Q A E N 6 3360 342 N R  N D R W I Q D 6 3361 358 Q A  P H K T L P V 6 3362 368 F D  S P R N G E L 6 3363 369 D S  P R N G E L Q 6 3364 371 P R  N G E L Q D F 6 3365 396 P R  D R S V S G L 6 3366 398 D R  S V S G L D S 6 3367 405 D S  F G N L E V S 6 3368 443 T Q  V V R D F L H 6 3369 448 D F  L H A Q K V Q 6 3370 456 Q P  P V E L F V D 6 3371 466 L A  V G H V D E F 6 3372 507 G H  G R A L L F Q 6 3373 532 L S  N K D L I N Y 6 3374 614 E E  K V R S L L E 6 3375 615 E K  V R S L L E P 6 3376 30 Y G  S V P E G T E 5 3377 71 D A  T L E I I V V 5 3378 84 S N  D L N D S H V 5 3379 120 D C  D L N C E G R 5 3380 136 K R  Q W V W G P S 5 3381 143 P S  G Y G G I L L 5 3382 146 T G  G I L L V N C 5 3383 153 N C  D R D D P S C 5 3384 165 D N  C D Q H V H C 5 3385 177 L E  D M S V M V L 5 3386 180 M S  V M V L R T Q 5 3387 191 A A  L F D D H K L 5 3388 197 H K  L V L H T S S 5 3389 209 K R  A Q V F H I C 5 3390 230 L G  Q D K V S Y E 5 3391 236 S Y  E V P R L H G 5 3392 237 Y E  V P R L H G D 5 3393 242 L H  G D E E R F F 5 3394 256 F P  D A G F T G L 5 3395 274 D S  N E D F S A S 5 3396 279 F S  A S P I F T D 5 3397 280 S A  S P I F T D T 5 3398 286 T D  T V V F R V A 5 3399 300 P S  T L P P L E V 5 3400 303 L P  P L E V Y V C 5 3401 313 V R  N N T C F V D 5 3402 329 K A  G C K L T I C 5 3403 332 C K  L T I C P Q A 5 3404 339 Q A  E N R N D R W 5 3405 341 E N  R N D R W I Q 5 3406 352 M E  L G Y V Q A P 5 3407 357 V Q  A P H K T L P 5 3408 361 H K  T L P V V F D 5 3409 372 R N  G E L Q D F P 5 3410 377 Q D  F P T K R I L 5 3411 380 P Y  K R I L G P D 5 3412 392 V T  R E P R D R S 5 3413 402 S G  L D S F G N L 5 3414 404 L D  S F G N L E V 5 3415 425 L G  R I L I G G N 5 3416 457 P P  V E L F V D W 5 3417 472 D E  F L S F V P A 5 3418 482 D G  K G F R M L L 5 3419 483 G K  G F R M L L A 5 3420 491 A S  P G A C F K L 5 3421 501 Q E  K Q K C G H G 5 3422 515 Q G  V V D D E Q V 5 3423 518 V D  D E Q V K T I 5 3424 540 Y N  K F V Q S C I 5 3425 546 S C  I D W N R E V 5 3426 550 W N  R E V L K R E 5 3427 579 K A  T A F F P D L 5 3428 580 A T  A F F P D L V 5 3429 589 N M  L V L G K H L 5 3430 601 K P  F G P I I N G 5 3431 607 I N  G C C C L E E 5 3432 613 L E  E K V R S L L 5 3433 628 C T  F I D D F T P 5 3434 641 H G  E V H C G T N 5 3435 647 G T  N V C R K P F 5 3436 652 R K  P F S F K W W 5 3437 13 H P  T S A V C V A 4 3438 15 T S  A V C V A G V 4 3439 29 I Y  G S V P E G T 4 3440 36 G T  E M F E V Y G 4 3441 39 M F  E V T G Y P G 4 3442 68 W R  F D A T L E I 4 3443 97 H S  S H E P L P L 4 3444 100 H E  P L P L A Y A 4 3445 113 T C  V D I S L D C 4 3446 121 C D  L N C E G R Q 4 3447 124 N C  E G R Q D R N 4 3448 126 E G  R Q D R N F V 4 3449 132 N F  V D K R Q W V 4 3450 147 G G  I L L V N C D 4 3451 171 V H  C L Q D L E D 4 3452 174 L Q  D L E D M S V 4 3453 188 Q G  P A A L F D D 4 3454 210 R A  Q V F H I C G 4 3455 213 V F  H I C G P E D 4 3456 252 E G  L S F P D A G 4 3457 257 P D  A G F T G L I 4 3458 266 S F  H V T L L D D 4 3459 277 E D  F S A S P I F 4 3460 290 V F  R V A P W I M 4 3461 318 C F  V D A V A E L 4 3462 407 F G  N L E V S P P 4 3463 408 G N  L E V S P P V 4 3464 422 E Y  P L G R I L I 4 3465 471 V D  E F L S F V P 4 3466 493 P G  A C F K L F Q 4 3467 494 G A  C F K L F Q E 4 3468 500 F Q  E K Q K C G H 4 3469 523 V K  T I S I N Q V 4 3470 544 V Q  S C I D W N R 4 3471 559 L G  L A E C D I I 4 3472 562 A E  C D I I D I P 4 3473 573 F K  T E R K K A T 4 3474 578 K K  A T A F F P D 4 3475 626 L H  C T F I D D F 4 3476 635 T P  Y H M L H G N 4 3477 642 G E  V H C G T N V 4 3478 651 C R  K P F S F K W 4 3479 653 K P  F S F K W W N 4 3480 33 V P  E G T E M F E 3 3481 44 G T  P G V D I Y I 3 3482 46 P G  V D I Y I S P 3 3483 48 V D  I Y I S P N M 3 3484 53 S P  N M E R G R E 3 3485 80 M N  S P S N D L N 3 3486 81 N S  P S N D L N D 3 3487 112 L T  C V D I S L D 3 3488 115 V D  I S L D C D L 3 3489 135 D K  R Q W V W G P 3 3490 141 W G  P S G Y G G I 3 3491 152 V N  C D R D D P S 3 3492 179 D M  S V M V L R T 3 3493 182 V H  V L R T Q G P 3 3494 195 D D  H K L V L H T 3 3495 203 T S  S T D A K R A 3 3496 211 A Q  V F H I C G P 3 3497 246 E E  R F F V E G L 3 3498 273 D D  S N E D F S A 3 3499 278 D F  S A S P I F T 3 3500 291 F R  V A P W I M T 3 3501 323 V A  E L A R K A G 3 3502 330 A G  C K L T I C P 3 3503 344 N D  R W I Q D E M 3 3504 349 Q D  E M E L G Y V 3 3505 387 P D  F G Y V T R E 3 3506 417 V A  N G K E Y P L 3 3507 418 A N  G K E Y P L G 3 3508 434 L P  G S S G R R V 3 3509 459 V E  L F V D W L A 3 3510 473 E F  L S F V P A P 3 3511 475 L S  F V P A P D G 3 3512 481 P D  G K G F R M L 3 3513 513 L F  Q G V V D D E 3 3514 520 D E  Q V K T I S I 3 3515 521 E Q  V K T I S I N 3 3516 533 S N  K D L I N Y N 3 3517 542 K F  V Q S C I D W 3 3518 545 Q S  C I D W N R E 3 3519 584 F P  D L V N M L V 3 3520 594 G K  H L G I P K P 3 3521 600 P K  P F G P I I N 3 3522 602 P F  G P I I N G C 3 3523 621 L E  P L G L H C T 3 3524 631 I D  D F T P Y H M 3 3525 634 F T  P Y H M L H G 3 3526 23 V E  T L V D I Y G 2 3527 24 E T  L V D I Y G S 2 3528 40 F E  V Y G T P G V 2 3529 82 S P  S N D L N D S 2 3530 98 S S  H E P L P L A 2 3531 107 Y A  V L Y L T C V 2 3532 110 L Y  L T C V D I S 2 3533 159 P S  C D V Q D N C 2 3534 169 Q H  V H C L Q D L 2 3535 172 H C  L Q D L E D M 2 3536 243 H G  D E E R F F V 2 3537 247 E R  F F V E G L S 2 3538 308 V Y  V C R V R N N 2 3539 331 G C  K L T I C P Q 2 3540 336 I C  P Q A E N R N 2 3541 337 C P  Q A E N R N D 2 3542 345 D R  W I Q D E M E 2 3543 378 D F  P T K R I L G 2 3544 390 G Y  V T R S P R D 2 3545 442 V T  Q V V R D F L 2 3546 450 L H  A Q K V Q P P 2 3547 463 V D  W L A V G H V 2 3548 496 C F  K L F Q E K Q 2 3549 499 L F  Q S K Q K C G 2 3550 509 G R  A L L F Q G V 2 3551 519 D D  E Q V K T I S 2 3552 528 I N  Q V L S N K D 2 3553 539 N Y  N K F V Q S C 2 3554 572 L F  K T E R K K A 2 3555 583 F F  P D L V N M L 2 3556 603 F G  P I I N G C C 2 3557 624 L G  L H C T F I D 2 3558 640 L H  G E V H C G T 2 3559 646 C G  T N V C R K P 2 3560 648 T N  V C R K P F S 2 3561 70 F D  A T L E I I V 1 3562 90 S H  V Q I S Y H S 1 3563 95 S Y  H S S H E P L 1 3564 119 L D  C D L N C E G 1 3565 130 D R  N F V D K R Q 1 3566 155 D R  D D P S C D V 1 3567 160 S C  D V Q D N C D 1 3568 163 V Q  D N C D Q H V 1 3569 167 C D  Q H V H C L Q 1 3570 217 C G  P E D V C E A 1 3571 231 G Q  D K V S Y E V 1 3572 251 V E  G L S F P D A 1 3573 261 F T  G L I S F H V 1 3574 285 F T  D T V V F R V 1 3575 293 V A  P W I M T P S 1 3576 299 T P  S T L P P L E 1 3577 315 N N  T C F V D A V 1 3578 355 G Y  V Q A P H K T 1 3579 367 V F  D S P R N G E 1 3580 388 D F  G Y V T R E P 1 3581 401 V S  G L D S F G N 1 3582 414 P P  V V A N G K E 1 3583 420 G K  E Y P L G R I 1 3584 451 H A  Q K V Q P P V 1 3585 514 F Q  G V V D D E Q 1 3586 529 N Q  V L S N K D L 1 3587 563 E C  D I I D I P Q 1 3588 617 V R  S L L E P L G 1 3589 632 D D  F T P Y H M L 1 3590 636 P Y  H M L H G E V 1 3591 654 P F  S F K W W N M 1 3592 655 F S  F K W W N M V 1 3593 184P1E2 v.2: HLA Peptide Scoring Results A3 9-mers SYFPEITHI 7 T L  A P L E V Y V 18 3594 6 S T  L A P L E V Y 15 3595 9 A P  L E V Y V C R 15 3596 1 W I  M T P S T L A 9 3597 2 I M  T P S T L A P 9 3598 5 P S  T L A P L E V 5 3599 8 L A  P L E V Y V C 5 3600 3 M T  P S T L A P L 3 3601 4 T P  S T L A P L E 3 3602 184P1E2 v.3: HLA Peptide Scoring Results A3 9-mers SYFPEITHI 8 P V  P D G K G F R 18 3603 3 F L  S F V P V P D 16 3604 5 S F  V P V P D G K 16 3605 6 F V  P V P D G K G 11 3606 7 V P  V P D G K G F 10 3607 2 E F  L S F V P V P 6 3608 9 V P  D G K G F R M 6 3609 1 D E  F L S F V P V 5 3610

TABLE XXVII SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results A26 9-mers SYFPEITHI 565 D I I D I P Q L F 30 3611 301 S T L P P L E V Y 26 3612 454 K V Q P P V E L F 26 3613 553 E V L K R E L G L 26 3614 22 G V E T L V D I Y 25 3615 28 D I Y G S V P E G 25 3616 72 A T L E I I V V M 25 3617 298 M T P S T L P P L 25 3618 441 R V T Q V V R D F 25 3619 32 S V P E G T E M F 24 3620 234 K V S Y E V P R L 24 3621 411 E V S P P V V A N 24 3622 582 A F F P D L V N M 24 3623 612 C L E E K V R S L 24 3624 616 K V R S L L E P L 24 3625 75 E I I V V M N S P 23 3626 186 R T Q G P A A L F 23 3627 221 D V C E A Y R H V 23 3628 283 P I F T D T V V F 23 3629 383 R I L G P D F G Y 23 3630 568 D I P Q L F K T E 23 3631 629 T F I D D F T P Y 23 3632 35 E G T E M F E V Y 22 3633 102 P L P L A Y A V L 22 3634 264 L I S F H V T L L 22 3635 458 P V E L F V D W L 22 3636 524 K T I S I N Q V L 22 3637 583 F F P D L V N M L 22 3638 649 N V C R K P F S F 22 3639 24 E T L V D I Y G S 21 3640 104 P L A T A V L Y L 21 3641 229 V L G Q D K V S Y 21 3642 241 R L H G D E E R F 21 3643 271 L L D D S N E D F 21 3644 318 C F V D A V A E L 21 3645 415 P V V A N G K E Y 21 3646 489 L L A S P G A C F 21 3647 632 D D F T P Y H M L 21 3648 198 K L V L H T S S Y 20 3649 253 G L S F P D A G F 20 3650 263 G L I S F H V T L 20 3651 277 E D F S A S P I F 20 3652 605 P I I N G C C C L 20 3653 647 G T N V C R K P F 20 3654 246 E E R F F V E G L 19 3655 248 R F F V E G L S F 19 3656 473 E F L S F V P A P 19 3657 547 C I D W N R E V L 19 3658 576 E R K K A T A F F 19 3659 586 D L V N M L V L G 19 3660 622 E P L G L H C T F 19 3661 41 E V Y G T P G V D 18 3662 49 D I Y I S P N M E 18 3663 86 D L N D S H V Q I 18 3664 162 D V Q D N C D Q H 18 3665 238 E V P R L H G D E 18 3666 287 D T V V F R V A P 18 3667 292 R V A P W I M T P 18 3668 307 E V Y V C R V R N 18 3669 356 T V Q A P H K T L 18 3670 429 L I G G N L P G S 18 3671 442 V T Q V V R D F L 18 3672 467 A V G H V D E F L 18 3673 470 H V D E F L S F V 18 3674 482 D G K G F R M L L 18 3675 51 Y I S P N M E R G 17 3676 111 Y L T C V D I S L 17 3677 176 D L E D M S V M V 17 3678 259 A G F T G L I S F 17 3679 371 P R N G E L Q D F 17 3680 460 E L F V D W L A V 17 3681 466 L A V G H V D E F 17 3682 527 S I N Q V L S N K 17 3683 6 I V R V S L E H P 16 3684 43 Y G T P G V D I Y 16 3685 47 G V D I Y I S P N 16 3686 64 D T R R W R F D A 16 3687 91 H V Q I S T H S S 16 3688 114 C V D I S L D C D 16 3689 116 D I S L D C D L N 16 3690 193 L F D D H K L V L 16 3691 285 F T D T V V F R V 16 3692 325 E L A R K A G C K 16 3693 362 K T L P V V F D S 16 3694 375 E L Q D F P Y K R 16 3695 396 P R D R S V S G L 16 3696 399 R S V S G L D S F 16 3697 445 V V R D F L H A Q 16 3698 469 G H V D E F L S F 16 3699 512 L L F Q G V V D D 16 3700 532 L S N K D L I N Y 16 3701 536 D L I N Y N K F V 16 3702 564 C D I I D I P Q L 16 3703 587 L V N M L V L G K 16 3704 598 G I P K P F G P I 16 3705 634 F T P Y H M L H G 16 3706 643 E V H C G T N V C 16 3707 654 P F S F K W W N M 16 3708 112 L T C V D I S L D 15 3709 122 D L N C E G R Q D 15 3710 175 Q D L E D M S V M 15 3711 177 L E D M S V M V L 15 3712 288 T V V F R V A P W 15 3713 322 A V A E L A R K A 15 3714 347 W I Q D E M E L G 15 3715 353 E L G Y V Q A P H 15 3716 366 V V F D S P R N G 15 3717 402 S G L D S F G N L 15 3718 444 Q V V R D F L H A 15 3719 535 K D L I N Y N K F 15 3720 543 F V Q S C I D W N 15 3721 633 D F T P Y H M L H 15 3722 25 T L V D I Y G S V 14 3723 38 E M F E V Y G T P 14 3724 73 T L E I I V V M N 14 3725 99 S H E P L P L A Y 14 3726 166 N C D Q H V H C L 14 3727 256 F P D A G F T G L 14 3728 260 G F T G L I S F H 14 3729 274 D S N E D F S A S 14 3730 290 V F R V A P W I M 14 3731 334 L T I C P Q A E N 14 3732 335 T I C P Q A E N R 14 3733 348 I Q D E M E L G Y 14 3734 363 T L P V V F D S P 14 3735 378 D F P Y K R I L G 14 3736 384 I L G P D F G Y V 14 3737 400 S V S G L D S F G 14 3738 405 D S F G N L E V S 14 3739 462 F V D W L A V G H 14 3740 472 D E F L S F V P A 14 3741 478 V P A P D G K G F 14 3742 481 P D G K G F R M L 14 3743 492 S P G A C F K L F 14 3744 517 V V D D E Q V K T 14 3745 558 E L G L A E C D I 14 3746 591 L V L G K H L G I 14 3747 619 S L L E P L G L H 14 3748 626 L H C T F I D D F 14 3749 639 M L H G E V H C G 14 3750 19 C V A G V E T L V 13 3751 44 G T P G V D I Y I 13 3752 78 V V M N S P S N D 13 3753 118 S L D C D L N C E 13 3754 169 Q H V H C L Q D L 13 3755 172 H C L Q D L E D M 13 3756 195 D D H K L V L H T 13 3757 202 H T S S Y D A K R 13 3758 206 Y D A K R A Q V F 13 3759 228 H V L G Q D K V S 13 3760 249 F F V E G L S F P 13 3761 250 F V E G L S F P D 13 3762 278 D F S A S P I F T 13 3763 289 V V F R V A P W I 13 3764 302 T L P P L E V Y V 13 3765 305 P L E V Y V C R V 13 3766 346 R W I Q D F M E L 13 3767 360 P H K T L P V V F 13 3768 388 D F G Y V T R E P 13 3769 392 V T R E P R D R S 13 3770 424 P L G R I L I G G 13 3771 433 N L P G S S G R R 13 3772 480 A P D G K G F R M 13 3773 485 G F R M L L A S P 13 3774 498 K L F Q E K Q K C 13 3775 554 V L K R E L G L A 13 3776 575 T E R K K A T A F 13 3777 579 K A T A F F P D L 13 3778 592 V L G K H L G I P 13 3779 602 P F G P I I N G C 13 3780 630 F I D D F T P Y H 13 3781 2 S L Q R I V R V S 12 3782 14 P T S A V C V A G 12 3783 17 A V C V A G V E T 12 3784 18 V C V A G V E T L 12 3785 26 L V D I Y G S V P 12 3786 48 V D I Y I S P N M 12 3787 62 R A D T R R W R F 12 3788 77 I V V M N S P S N 12 3789 89 D S H V Q I S Y H 12 3790 93 Q I S Y H S S H E 12 3791 115 V D I S L D C D L 12 3792 125 C E G R Q D R N F 12 3793 133 F V D K R Q W V W 12 3794 135 D K R Q W V W G P 12 3795 138 Q W V W G P S G Y 12 3796 139 W V W G P S G Y G 12 3797 178 E D M S V M V L R 12 3798 181 S V M V L R T Q G 12 3799 212 Q V F H I C G P E 12 3800 215 H I C G P E D V C 12 3801 218 G P E D V C E A Y 12 3802 245 D E E R F F V E G 12 3803 268 H V T L L D D S N 12 3804 269 V T L L D D S N E 12 3805 284 I F T D T V V F R 12 3806 321 D A V A E L A R K 12 3807 351 E M E L G Y V Q A 12 3808 365 P V V F D S P R N 12 3809 377 Q D F P Y K R I L 12 3810 381 Y K R I L G P D F 12 3811 428 I L I G G N L P G 12 3812 448 D F L H A Q K V Q 12 3813 461 L F V D W L A V G 12 3814 477 F V P A P D G K G 12 3815 491 A S P G A C F K L 12 3816 506 C G H G R A L L F 12 3817 513 L F Q G V V D D E 12 3818 516 G V V D D E Q V K 12 3819 521 E Q V K T I S I N 12 3820 522 Q V K T I S I N Q 12 3821 571 Q L F K T E R K K 12 3822 574 K T E R K K A T A 12 3823 585 P D L V N M L V L 12 3824 595 K H L G I P K P F 12 3825 606 I I N G C C C L E 12 3826 615 E K V R S L L E P 12 3827 620 L L E P L G L H C 12 3828 625 G L H C T F I D D 12 3829 628 C T F I D D F T P 12 3830 5 R I V R V S L E H 11 3831 8 R V S L E H P T S 11 3832 31 G S V P E G T E M 11 3833 36 G T E M F E V Y G 11 3834 69 R F D A T L E I I 11 3835 76 I I V V M N S P S 11 3836 88 N D S H V Q I S Y 11 3837 103 L P L A Y A V L Y 11 3838 108 A V L Y L T C V D 11 3839 158 D P S C D V Q D N 11 3840 170 H V H C L Q D L E 11 3841 173 C L Q D L E D M S 11 3842 179 D M S V M V L R T 11 3843 184 V L R T Q G P A A 11 3844 185 L R T Q G P A A L 11 3845 192 A L F D D H K L V 11 3846 196 D H K L V L H T S 11 3847 199 L V L H T S S Y D 11 3848 224 E A Y R H V L G Q 11 3849 242 L H G D E E R F F 11 3850 261 F T G L I S F H V 11 3851 295 P W I M T P S T L 11 3852 309 Y V C R V R N N T 11 3853 316 N T C F V D A V A 11 3854 319 F V D A V A E L A 11 3855 368 F D S P R N G E L 11 3856 373 N G E L Q D F P Y 11 3857 416 V V A N G K E Y P 11 3858 417 V A N G K E Y P L 11 3859 421 K E Y P L G R I L 11 3860 426 G R I L I G G N L 11 3861 449 F L H A Q K V Q P 11 3862 453 Q K V Q P P V E L 11 3863 504 Q K C G H G R A L 11 3864 525 T I S I N Q V L S 11 3865 530 Q V L S N K D L I 11 3866 549 D W N R E V L K R 11 3867 560 G L A E C D I I D 11 3868 566 I I D I P Q L F K 11 3869 580 A T A F F P D L V 11 3870 3 L Q R I V R V S L 10 3871 10 S L E H P T S A V 10 3872 71 D A T L E I I V V 10 3873 95 S Y H S S H E P L 10 3874 101 E P L P L A Y A V 10 3875 142 G P S G Y G G I L 10 3876 148 G I L L V N C D R 10 3877 151 L V N C D R D D P 10 3878 157 D D P S C D V Q D 10 3879 165 D N C D Q H V H C 10 3880 183 M V L R T Q G P A 10 3881 266 S F H V T L L D D 10 3882 270 T L L D D S N E D 10 3883 296 W I M T P S T L P 10 3884 311 C R V R N N T C F 10 3885 312 R V R N N T C F V 10 3886 326 L A R K A G C K L 10 3887 333 K L T I C P Q A E 10 3888 391 Y V T R E P R D R 10 3889 403 G L D S F G N L E 10 3890 409 N L E V S P P V V 10 3891 427 R I L I G G N L P 10 3892 465 W L A V G H V D E 10 3893 488 M L L A S P G A C 10 3894 495 A C F K L F Q E K 10 3895 511 A L L F Q G V V D 10 3896 537 L I N Y N K F V Q 10 3897 551 N R E V L K R E L 10 3898 567 I D I P Q L F K T 10 3899 589 N M L V L G K H L 10 3900 613 L E E K V R S L L 10 3901 631 I D D F T P Y H M 10 3902 12 E H P T S A V C V 9 3903 66 R R W R F D A T L 9 3904 79 V M N S P S N D L 9 3905 109 V L Y L T C V D I 9 3906 132 N F V D K R Q W V 9 3907 149 I L L V N C D R D 9 3908 191 A A L F D D H K L 9 3909 200 V L H T S S Y D A 9 3910 344 N D R W I Q D E M 9 3911 350 D E M E L G Y V Q 9 3912 367 V F D S P R N G E 9 3913 387 P D F G Y V T R E 9 3914 395 E P R D R S V S G 9 3915 406 S F G N L E V S P 9 3916 412 V S P P V V A N G 9 3917 474 F L S F V P A P D 9 3918 476 S F V P A P D G K 9 3919 499 L F Q E K Q K C G 9 3920 505 K C G H G R A L L 9 3921 529 N Q V L S N K D L 9 3922 531 V L S N K D L I N 9 3923 596 H L G I P K P F G 9 3924 601 K P F G P I I N G 9 3925 618 R S L L E P L G L 9 3926 61 E R A D T R R W R 8 3927 74 L E I I V V M N S 8 3928 97 H S S H E P L P L 8 3929 120 D C D L N C E G R 8 3930 143 P S G Y G G I L L 8 3931 150 L L V N C D R D D 8 3932 155 D R D D P S C D V 8 3933 207 D A K R A Q V F H 8 3934 213 V F H I C G P E D 8 3935 217 C G P E D V C E A 8 3936 222 V C E A Y R H V L 8 3937 233 D K V S Y E V P R 8 3938 247 E R F F V E G L S 8 3939 252 E G L S F P D A G 8 3940 255 S F P D A G F T G 8 3941 345 D R W I Q D E M E 8 3942 352 M E L C Y V Q A P 8 3943 450 L H A Q K V Q P P 8 3944 457 P P V E L F V D W 8 3945 496 C F K L F Q E K Q 8 3946 502 E K Q K C G H G R 8 3947 509 G R A L L F Q G V 8 3948 518 V D D E Q V K T I 8 3949 520 D E Q V K T I S I 8 3950 526 I S I N Q V L S N 8 3951 542 K F V Q S C I D W 8 3952 572 L F K T E R K K A 8 3953 590 M L V L G K H L G 8 3954 623 P L G L H C T F I 8 3955 656 S F K W W N M V P 8 3956 1 M S L Q R I V R V 7 3957 4 Q R I V R V S L E 7 3958 15 T S A V C V A G V 7 3959 21 A G V E T L V D I 7 3960 57 E R G R E R A D T 7 3961 87 L N D S H V Q I S 7 3962 98 S S H E P L P L A 7 3963 126 E G R Q D R N F V 7 3964 130 D R N F V D K R Q 7 3965 141 W G P S G Y G G I 7 3966 146 T G G I L L V N C 7 3967 147 G G I L L V N C D 7 3968 168 D Q H V H C L Q D 7 3969 194 F D D H K L V L H 7 3970 201 L H T S S Y D A K 7 3971 220 E D V C E A Y R H 7 3972 230 L G Q D K V S Y E 7 3973 237 Y E V P R L H G D 7 3974 273 D D S N E D F S A 7 3975 304 P P L E V Y V C R 7 3976 369 D S P R N G E L Q 7 3977 398 D R S V S G L D S 7 3978 422 E Y P L G R I L I 7 3979 440 R R V T Q V V R D 7 3980 484 K G F R M L L A S 7 3981 519 D D E Q V K T I S 7 3982 533 S N K D L I N Y N 7 3983 538 I N Y N K F V Q S 7 3984 539 N Y N K F V Q S C 7 3985 550 W N R E V L K R E 7 3986 563 E C D I I D I P Q 7 3987 614 E E K V R S L L E 7 3988 39 M F E V Y G T P G 6 3989 46 P G V D I Y I S P 6 3990 100 H E P L P L A Y A 6 3991 106 A Y A V L Y L T C 6 3992 128 R Q D R N F V D K 6 3993 144 S G Y G G I L L V 6 3994 145 G Y G G I L L V N 6 3995 189 G P A A L F D D H 6 3996 208 A K R A Q V F H I 6 3997 209 K R A Q V F H I C 6 3998 232 Q D K V S Y E V P 6 3999 244 G D E E R F F V E 6 4000 251 V E G L S F P D A 6 4001 258 D A G F T G L I S 6 4002 279 F S A S P I F T D 6 4003 280 S A S P I F T D T 6 4004 341 E N R N D R W I Q 6 4005 343 R N D R W I Q D E 6 4006 359 A P H K T L P V V 6 4007 374 G E L Q D F P Y K 6 4008 376 L Q D F P Y K R I 6 4009 379 F P Y K R I L G P 6 4010 386 G P D F G Y V T R 6 4011 418 A N G K E Y P L G 6 4012 423 Y P L G R I L I G 6 4013 425 L G R I L I G G N 6 4014 46 D W L A V G H V D 6 4015 494 G A C F K L F Q E 6 4016 508 H G R A L L F Q G 6 4017 523 V K T I S I N Q V 6 4018 556 K R E L G L A E C 6 4019 594 G K H L G I P K P 6 4020 597 L G I P K P F G P 6 4021 650 V C R K P F S F K 6 4022 652 R K P F S F K W W 6 4023 13 H P T S A V C V A 5 4024 34 P E G T E M F E V 5 4025 37 T E M F E V Y G T 5 4026 50 I Y I S P N M E R 5 4027 65 T R R W R F D A T 5 4028 92 V Q I S Y H S S H 5 4029 129 Q D R N F V D K R 5 4030 188 Q G P A A L F D D 5 4031 211 A Q V F H I C G P 5 4032 225 A Y R H V L G Q D 5 4033 262 T G L I S F H V T 5 4034 267 F H V T L L D D S 5 4035 293 V A P W I M T P S 5 4036 303 L P P L E V Y V C 5 4037 308 V Y V C R V R N N 5 4038 314 R N N T C F V D A 5 4039 315 N N T C F V D A V 5 4040 329 K A G C K L T I C 5 4041 331 G C K L T I C P Q 5 4042 361 H K T L P V V F D 5 4043 380 P Y K R I L G P D 5 4044 407 F G N L E V S P P 5 4045 420 G K E Y P L G R I 5 4046 437 S S G R R V T Q V 5 4047 456 Q P P V E L F V D 5 4048 463 V D W L A V G H V 5 4049 562 A E C D I I D I P 5 4050 578 K K A T A F F P D 5 4051 588 V N M L V L G K H 5 4052 608 N G C C C L E E K 5 4053 621 L E P L G L H C T 5 4054 635 T P Y H M L H G E 5 4055 645 H C G T N V C R K 5 4056 45 T P G V D I Y I S 4 4057 68 W R F D A T L E I 4 4058 82 S P S N D L N D S 4 4059 105 L A Y A V L Y L T 4 4060 107 Y A V L Y L T C V 4 4061 110 L Y L T C V D I S 4 4062 140 V W G P S G Y G G 4 4063 156 R D D P S C D V Q 4 4064 180 M S V M V L R T Q 4 4065 205 S Y D A K R A Q V 4 4066 254 L S F P D A G F T 4 4067 286 T D T V V F R V A 4 4068 317 T C F V D A V A E 4 4069 349 Q D E M E L G Y V 4 4070 419 N G K E Y P L G R 4 4071 432 G N L P G S S G R 4 4072 446 V R D F L H A Q K 4 4073 447 R D F L H A Q K V 4 4074 483 G K G F R M L L A 4 4075 501 Q E K Q K C G H G 4 4076 507 G H G R A L L F Q 4 4077 546 S C I D W N R E V 4 4078 555 L K R E L G L A E 4 4079 561 L A E C D I I D I 4 4080 599 I P K P F G P I I 4 4081 611 C C L E E K V R S 4 4082 651 C R K P F S F K W 4 4083 655 F S F K W W N M V 4 4084 9 V S L E H P T S A 3 4085 11 L E H P T S A V C 3 4086 27 V D I Y G S V P E 3 4087 33 V P E G T E M F E 3 4088 54 P N M E R G R E R 3 4089 56 M E R G R E R A D 3 4090 80 M N S P S N D L N 3 4091 81 N S P S N D L N D 3 4092 83 P S N D L N D S H 3 4093 84 S N D L N D S H V 3 4094 119 L D C D L N C E G 3 4095 123 L N C E G R Q D R 3 4096 124 N C E G R Q D R N 3 4097 131 R N F V D K R Q W 3 4098 134 V D K R Q W V W G 3 4099 153 N C D R D D P S C 3 4100 163 V Q D N C D Q H V 3 4101 174 L Q D L E D M S V 3 4102 216 I C G P E D V C E 3 4103 231 G Q D K V S Y E V 3 4104 243 H G D E E R F F V 3 4105 257 P D A G F T G L I 3 4106 275 S N E D F S A S P 3 4107 276 N E D F S A S P I 3 4108 297 I M T P S T L P P 3 4109 328 R K A G C K L T I 3 4110 336 I C P Q A E N R N 3 4111 338 P Q A E N R N D R 3 4112 354 L G Y V Q A P H K 3 4113 357 V Q A P H K T L P 3 4114 372 R N G E L Q D F P 3 4115 393 T R E P R D R S V 3 4116 408 G N L E V S P P V 3 4117 434 L P G S S G R R V 3 4118 436 G S S G R R V T Q 3 4119 452 A Q K V Q P P V E 3 4120 455 V Q P P V E L F V 3 4121 475 L S F V P A P D G 3 4122 500 F Q E K Q K C G H 3 4123 541 N K F V Q S C I D 3 4124 557 R E L G L A E C D 3 4125 573 F K T E R K K A T 3 4126 640 L H G E V H C G T 3 4127 644 V H C G T N V C R 3 4128 653 K P F S F K W W N 3 4129 7 V R V S L S H P T 2 4130 29 I Y G S V P E G T 2 4131 40 F E V Y G T P G V 2 4132 52 I S P N M E R G R 2 4133 58 R G R E R A D T R 2 4134 70 F D A T L E I I V 2 4135 90 S H V Q I S Y H S 2 4136 94 I S Y H S S H E P 2 4137 96 Y H S S H E P L P 2 4138 117 I S L D C D L N C 2 4139 137 R Q W V W G P S G 2 4140 154 C D R D D P S C D 2 4141 159 P S C D V Q D N C 2 4142 160 S C D V Q D N C D 2 4143 171 V H C L Q D L E D 2 4144 182 V M V L R T Q G P 2 4145 187 T Q G P A A L F D 2 4146 190 P A A L F D D H K 2 4147 197 H K L V L H T S S 2 4148 204 S S Y D A K R A Q 2 4149 214 F H I C G P E D V 2 4150 219 P E D V C E A Y R 2 4151 223 C E A Y R H V L G 2 4152 226 Y R H V L G Q D K 2 4153 235 V S Y E V P R L H 2 4154 265 I S F H V T L L D 2 4155 272 L D D S N E D F S 2 4156 282 S P I F T D T V V 2 4157 294 A P W I M T P S T 2 4158 299 T P S T L P P L E 2 4159 320 V D A V A E L A R 2 4160 324 A E L A R K A G C 2 4161 330 A G C K L T I C P 2 4162 332 C K L T I C P Q A 2 4163 342 N R N D R W I Q D 2 4164 355 G Y V Q A P H K T 2 4165 358 Q A P H K T L P V 2 4166 382 K R I L G P D F G 2 4167 385 L G P D F G Y V T 2 4168 390 G Y V T R E P R D 2 4169 394 R E P K D R S V S 2 4170 410 L F V S P P V V A 2 4171 413 S P P V V A N G K 2 4172 430 I G G N L P G S S 2 4173 431 G G N L P G S S G 2 4174 451 H A Q K V Q P P V 2 4175 479 P A P D G K G F R 2 4176 486 F R M L L A S P G 2 4177 487 R M L L A S P G A 2 4178 490 L A S P G A C F K 2 4179 497 F K L F Q F K Q K 2 4180 503 K Q K C G H G R A 2 4181 528 I N Q V L S N K D 2 4182 534 N K D L I N Y N K 2 4183 540 Y N K F V Q S C I 2 4184 570 P Q L F K T E R K 2 4185 581 T A F F P D L V N 2 4186 584 F P D L V N M L V 2 4187 593 L G K H L G I P K 2 4188 604 G P I I N G C C C 2 4189 609 G C C C L E E K V 2 4190 617 V R S L L E P L G 2 4191 636 P Y H M L H G E V 2 4192 638 H M L H G E V H C 2 4193 42 V Y G T P G V D I 1 4194 53 S P N M E R G R E 1 4195 55 N M E R G R E R A 1 4196 59 G R E R A D T R R 1 4197 60 R E R A D T R R W 1 4198 113 T C V D I S L D C 1 4199 121 C D L N C E G R Q 1 4200 127 G R Q D R N F V D 1 4201 152 V N C D R D D P S 1 4202 161 C D V Q D N C D Q 1 4203 203 T S S Y D A K R A 1 4204 227 R H V L G Q D K V 1 4205 236 S Y E V P R L H G 1 4206 239 V P R L H G D E E 1 4207 240 P R L H G D E E R 1 4208 281 A S P I F T D T V 1 4209 291 F R V A P W I M T 1 4210 300 P S T L P P L E V 1 4211 323 V A E L A R K A G 1 4212 327 A R K A G C K L T 1 4213 337 C P Q A E N R N D 1 4214 339 Q A E N R N D R W 1 4215 364 L P V V F D S P R 1 4216 370 S P R N G E L Q D 1 4217 397 R D R S V S G L D 1 4218 401 V S G L D S F G N 1 4219 404 L D S F G N L E V 1 4220 414 P P V V A N G K E 1 4221 435 P G S S G R R V T 1 4222 438 S G R R V T Q V V 1 4223 439 G R R V T Q V V R 1 4224 471 V D E F L S F V P 1 4225 493 P G A C F K L F Q 1 4226 514 F Q G V V D D E Q 1 4227 515 Q G V V D D E Q V 1 4228 544 V Q S C I D W N R 1 4229 545 Q S C I D W N R E 1 4230 548 I D W N R E V L K 1 4231 552 R E V L K R E L G 1 4232 569 I P Q L F K T E R 1 4233 577 R K K A T A F F P 1 4234 600 P K P F G P I I N 1 4235 603 F G P I I N G C C 1 4236 607 I N G C C C L E E 1 4237 642 G E V H C G T N V 1 4238 646 C G T N V C R K P 1 4239 648 T N V C R K P F S 1 4240 184P1E2 v.2: HLA Peptide Scoring Results A26 9-mers SYFPEITHI 3 M T P S T L A P L 25 4241 6 S T L A P L E V Y 24 4242 7 T L A P L E V Y V 13 4243 1 W I M T P S T L A 10 4244 9 A P L E V Y V C R 7 4245 8 L A P L E V Y V C 5 4246 2 I M T P S T L A P 4 4247 4 T P S T L A P L E 2 4248 5 P S T L A P L E V 1 4249 184P1E2 v.3: HLA Peptide Scoring Results A26 9-mers SYFPEITHI 2 E F L S F V P V P 18 4250 1 D E F L S F V P V 14 4251 7 V P V P D G K G F 13 4252 9 V P D G K G F R M 13 4253 6 F V P V P D G K G 12 4254 8 P V P D G K G F R 12 4255 3 F L S F V P V P D 9 4256 5 S F V P V P D G K 9 4257 4 L S F V P V P D G 7 4258

TABLE XXVIII SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results B 0702 9-mers SYFPEITHI 142 G P S G Y G G I L 25 4259 256 F P D A G F T G L 24 4260 480 A P D G K G F R M 22 4261 359 A P H K T L P V V 21 4262 294 A P W I M T P S T 20 4263 599 I P K P F G P I I 20 4264 101 E P L P L A Y A V 19 4265 478 V P A P D G K G F 19 4266 492 S P G A C F K L F 19 4267 622 E P L G L H C T F 19 4268 13 H P T S A V C V A 18 4269 282 S P I F T D T V V 18 4270 43 L P G S S G R R V 18 4271 584 F P D L V N M L V 17 4272 601 K P F G P I I N G 16 4273 3 L Q R I V R V S L 15 4274 97 H S S H E P L P L 15 4275 23 K V S T E V P R L 15 4276 395 E P R D R S V S G 15 4277 453 Q K V Q P P V E L 15 4278 104 P L A Y A V L Y L 14 4279 193 L F D D H K L V L 14 4280 246 E E R F F V E G L 14 4281 264 L I S F H V T L L 14 4282 326 L A R K A G C K L 14 4283 356 Y V Q A P H K T L 14 4284 370 S P R N G E L Q D 14 4285 423 Y P L G R I L I G 14 4286 467 A V G H V D E F L 14 4287 491 A S P G A C F K L 14 4288 504 Q K C G H G R A L 14 4289 505 K C G H G R A L L 14 4290 553 E V L K R E L G L 14 4291 579 K A T A F F P D L 14 4292 616 K V R S L L E P L 14 4293 33 V P E G T E M F E 13 4294 42 V T G T P G V D I 13 4295 79 V M N S P S N D L 13 4296 103 L P L A Y A V L Y 13 4297 158 D P S C D V Q D N 13 4298 177 L E D M S V M V L 13 4299 186 R T Q G P A A L F 13 4300 189 G P A A L F D D H 13 4301 222 V C E A Y R H V L 13 4302 239 V P R L H G D E E 13 4303 299 T P S T L P P L E 13 4304 368 F D S P R N G E L 13 4305 379 F P Y K R I L G P 13 4306 386 G P D F G T V T R 13 4307 417 V A N G K E Y P L 13 4308 421 K E Y P L G R I L 13 4309 457 P P V E L F V D W 13 4310 481 P D G K G F R M L 13 4311 482 D G K G F R M L L 13 4312 547 C I D W N R E V L 13 4313 585 P D L V N M L V L 13 4314 618 R S L L E P L G L 13 4315 632 D D F T P Y H M L 13 4316 18 V C V A G V E T L 12 4317 66 R R W R F D A T L 12 4318 82 S P S N D L N D S 12 4319 102 P L P L A Y A V L 12 4320 143 P S G Y G G I L L 12 4321 166 N C D Q H V H C L 12 4322 185 L R T Q G P A A L 12 4323 191 A A L F D D H K L 12 4324 208 A K R A Q V F H I 12 4325 253 G L S F P D A G F 12 4326 263 G L I S F H V T L 12 4327 298 M T P S T L P P L 12 4328 303 L P P L E V Y V C 12 4329 304 P P L E V Y V C R 12 4330 318 C F V D A V A E L 12 4331 328 R K A G C K L T I 12 4332 396 P R D R S V S G L 12 4333 410 L E V S P P V V A 12 4334 442 V T Q V V R D F L 12 4335 454 K V Q P P V E L F 12 4336 489 L L A S P G A C F 12 4337 524 K T I S I N Q V L 12 4338 569 I P Q L F K T E R 12 4339 598 G I P K P F G P I 12 4340 613 L E E K V R S L L 12 4341 10 S L E H P T S A V 11 4342 17 A V C V A G V E T 11 4343 45 T P G V D I Y I S 11 4344 53 S P N M E R G R E 11 4345 72 A T L E I I V V M 11 4346 95 S Y H S S H E P L 11 4347 126 E G R Q D R N F V 11 4348 179 D M S V M V L R T 11 4349 184 V L R T Q G P A A 11 4350 218 G P E D V C E A Y 11 4351 280 S A S P I F T D T 11 4352 300 P S T L P P L E V 11 4353 312 R V R N N T C F V 11 4354 337 C P Q A E N R N D 11 4355 346 R W I Q D E M E L 11 4356 364 L P V V F D S P R 11 4357 377 Q D F P Y K R I L 11 4358 402 S G L D S F G N L 11 4359 411 E V S P P V V A N 11 4360 426 G R I L I G G N L 11 4361 456 Q P P V E L F V D 11 4362 458 P V E L F V D W L 11 4363 564 C D I I D I P Q L 11 4364 575 T E R K K A T A F 11 4365 576 E R K K A T A F F 11 4366 582 A F F P D L V N M 11 4367 583 F F P D L V N M L 11 4368 589 N M L V L G K H L 11 4369 604 G P I I N G C C C 11 4370 612 C L E E K V R S L 11 4371 653 K P F S F K W W N 11 4372 19 C V A G V E T L V 10 4373 21 A G V E T L V D I 10 4374 57 E R G R E R A D T 10 4375 65 T R R W R F D A T 10 4376 98 S S H E P L P L A 10 4377 100 H E P L P L A Y A 10 4378 111 Y L T C V D I S L 10 4379 115 V D I S L D C D L 10 4380 144 S G Y G G I L L V 10 4381 155 D R D D P S C D V 10 4382 169 Q H V H C L Q D L 10 4383 195 D D H K L V L H T 10 4384 205 S Y D A K R A Q V 10 4385 248 R F F V E G L S F 10 4386 257 P D A G F T G L I 10 4387 278 D F S A S P I F T 10 4388 283 P I F T D T V V F 10 4389 291 F R V A P W I M T 10 4390 295 P W I M T P S T L 10 4391 314 R N N T C F V D A 10 4392 358 Q A P H K T L P V 10 4393 376 L Q D F P Y K R I 10 4394 381 Y K R I L G P D F 10 4395 384 I L G P D F G Y V 10 4396 404 L D S F G N L E V 10 4397 413 S P P V V A N G K 10 4398 414 P P V V A N G K E 10 4399 435 P G S S G R R V T 10 4400 438 S G R R V T Q V V 10 4401 455 V Q P P V E L F V 10 4402 460 E L F V D W L A V 10 4403 472 D E F L S F V P A 10 4404 506 C G H G R A L L F 10 4405 529 N Q V L S N K D L 10 4406 551 N R E V L K R E L 10 4407 591 L V L C K H L G I 10 4408 595 K H L G I P K P F 10 4409 605 P I I N G C C C L 10 4410 635 T P Y H M L H G E 10 4411 12 E H P T S A V C V 9 4412 15 T S A V C V A G V 9 4413 31 G S V P E G T E M 9 4414 62 R A D T R R W R F 9 4415 6 D T R R W R F D A 9 4416 68 W R F D A T L E I 9 4417 69 R F D A T L E I I 9 4418 206 T D A K R A Q V F 9 4419 241 R L H G D E E R F 9 4420 243 H G D S E R F F V 9 4421 251 V E G L S F P D A 9 4422 281 A S P I F T D T V 9 4423 302 T L P P L E V Y V 9 4424 322 A V A E L A R K A 9 4425 327 A R K A G C K L T 9 4426 351 E M E L G Y V Q A 9 4427 360 P H K T L P V V F 9 4428 420 G K E Y P L G R I 9 4429 437 S S G R R V T Q V 9 4430 444 Q V V R D F L H A 9 4431 451 H A Q K V Q P P V 9 4432 466 L A V G H V D E F 9 4433 469 G H V D E F L S F 9 4434 483 G K G F R M L L A 9 4435 517 V V D D E Q V K T 9 4436 580 A T A F F P D L V 9 4437 623 P L G L H C T F I 9 4438 1 M S L Q R I V R V 8 4439 29 I Y G S V P E G T 8 4440 37 T E M F E V Y G T 8 4441 40 F E V T G T P G V 8 4442 44 G T P G V D I Y I 8 4443 86 D L N D S H V Q I 8 4444 109 V L Y L T C V D I 8 4445 176 D L E D M S V M V 8 4446 192 A L F D D H K L V 8 4447 203 T S S Y D A K R A 8 4448 231 G Q D K V S Y E V 8 4449 242 L H G D E E R F F 8 4450 254 L S F P D A G F T 8 4451 259 A G F T G L I S F 8 4452 262 T G L I S F H V T 8 4453 273 D D S N E D F S A 8 4454 276 N E D F S A S P I 8 4455 277 E D F S A S P I F 8 4456 285 F T D T V V F R V 8 4457 286 T D T V V F R V A 8 4458 290 V F R V A P W I M 8 4459 315 N N T C F V D A V 8 4460 316 N T C F V D A V A 8 4461 319 F V D A V A E L A 8 4462 340 A E N R N D R W I 8 4463 344 N D R W I Q D E M 8 4464 371 P R N G E L Q D F 8 4465 385 L G P D F G Y V T 8 4466 408 G N L E V S P P V 8 4467 409 N L E V S P P V V 8 4468 422 E Y P L G R I L I 8 4469 441 R V T Q V V R D F 8 4470 470 H V D E F L S F V 8 4471 487 R M L L A S P G A 8 4472 509 G R A L L F Q G V 8 4473 510 R A L L F Q G V V 8 4474 518 V D D E Q V K T I 8 4475 558 E L G L A E C D I 8 4476 566 I I D I P Q L F K 8 4477 567 I D I P Q L F K T 8 4478 574 K T E R K K A T A 8 4479 631 I D D F T P Y H M 8 4480 642 G E V H C G T N V 8 4481 647 G T N V C R K P F 8 4482 650 V C R K P F S F R 8 4483 654 P F S F K W W N M 8 4484 7 V R V S L E H P T 7 4485 9 V S L E H P T S A 7 4486 32 S V P E G T E M F 7 4487 34 P E G T E M F E V 7 4488 48 V D I Y I S P N M 7 4489 55 N M E R G R E R A 7 4490 70 F D A T L E I I V 7 4491 71 D A T L E I I V V 7 4492 84 S N D L N D S H V 7 4493 105 L A Y A V L Y L T 7 4494 107 Y A V L Y L T C V 7 4495 125 C E G R Q D R N F 7 4496 132 N F V D K R Q W V 7 4497 163 V Q D N C D Q H V 7 4498 174 L Q D L E D M S V 7 4499 175 Q D L E D M S V M 7 4500 183 M V L R T Q G P A 7 4501 217 C G P E D V C E A 7 4502 227 R H V L G Q D K V 7 4503 261 F T G L I S F H V 7 4504 271 L L D D S N E D F 7 4505 289 V V F R V A P W I 7 4506 305 P L E V Y V C R V 7 4507 309 Y V C R V R N N T 7 4508 311 C R V R N N T C F 7 4509 332 C K L T I C P Q A 7 4510 361 H K T L P V V F D 7 4511 393 T R E P R D R S V 7 4512 399 R S V S G L D S F 7 4513 436 G S S G R R V T Q 7 4514 447 R D F L H A Q K V 7 4515 463 V D W L A V G H V 7 4516 503 K Q K C G H G R A 7 4517 520 D E Q V K T I S I 7 4518 535 K D L I N Y N K F 7 4519 536 D L I N Y N K F V 7 4520 559 L G L A E C D I I 7 4521 572 L F K T E R K K A 7 4522 573 F K T E R K K A T 7 4523 627 H C T F I D D F T 7 4524 640 L H G E V H C G T 7 4525 655 F S F K W W N M V 7 4526 14 P T S A V C V A G 6 4527 25 T L V D I Y G S V 6 4528 141 W G P S G Y G G I 6 4529 145 G Y G G I L L V N 6 4530 172 H C L Q D L E D M 6 4531 200 V L H T S S Y D A 6 4532 214 F H I C G P E D V 6 4533 215 H I C G P E D V C 6 4534 221 D V C E A Y R H V 6 4535 236 S Y S V P R L H G 6 4536 297 I M T P S T L P P 6 4537 349 Q D E M S L G Y V 6 4538 355 G Y V Q A P H K T 6 4539 383 R I L G P D F G Y 6 4540 392 V T R E P R D R S 6 4541 428 I L I G G N L P G 6 4542 459 V E L F V D W L A 6 4543 511 A L L F Q G V V D 6 4544 515 Q G V V D D E Q V 6 4545 523 V K T I S I N Q V 6 4546 530 Q V L S N K D L I 6 4547 540 Y N K F V Q S C I 6 4548 546 S C I D W N R E V 6 4549 554 V L K R E L G L A 6 4550 555 L K R E L G L A E 6 4551 561 L A E C D I I D I 6 4552 565 D I I D I P Q L F 6 4553 581 T A F F P D L V N 6 4554 596 H L G I P K P F G 6 4555 609 G C C C L E E K V 6 4556 621 L E P L G L H C T 6 4557 626 L H C T F I D D F 6 4558 636 P Y H M L H G E V 6 4559 649 N V C R K P F S F 6 4560 20 V A G V E T L V D 5 4561 30 Y G S V P E G T E 5 4562 56 M E R G R E R A D 5 4563 60 R E R A D T R R W 5 4564 106 A Y A V L Y L T C 5 4565 128 R Q D R N F V D K 5 4566 139 W V W G P S G Y G 5 4567 187 T Q G P A A L F D 5 4568 216 I C G P E D V C E 5 4569 284 I F T D T V V F R 5 4570 296 W I M T P S T L P 5 4571 301 S T L P P L E V Y 5 4572 367 V F D S P R N G E 5 4573 398 D R S V S G L D S 5 4574 400 S V S G L D S F G 5 4575 418 A N G K E Y P L G 5 4576 439 G R R V T Q V V R 5 4577 8 R V S L E H P T S 4 4578 28 D I Y G S V P E G 4 4579 41 E V Y G T P G V D 4 4580 50 I Y I S P N M E R 4 4581 67 R W R F D A T L E 4 4582 99 S H E P L P L A Y 4 4583 108 A V L T L T C V D 4 4584 156 R D D P S C D V Q 4 4585 178 E D M S V M V L R 4 4586 224 E A Y R H V L G Q 4 4587 225 A Y R H V L G Q D 4 4588 258 D A G F T G L I S 4 4589 265 I S F H V T L L D 4 4590 279 F S A S P I F T D 4 4591 287 D T V V F R V A P 4 4592 307 E V Y V C R V R N 4 4593 320 V D A V A E L A R 4 4594 324 A E L A R K A G C 4 4595 330 A G C K L T I C P 4 4596 334 L T I C P Q A E N 4 4597 341 E N R N D R W I Q 4 4598 348 I Q D E M E L G Y 4 4599 352 M E L G Y V Q A P 4 4600 353 E L G Y V Q A P H 4 4601 387 P D F G Y V T R E 4 4602 429 L I G G N L P G S 4 4603 431 G G N L P G S S G 4 4604 440 R R V T Q V V R D 4 4605 452 A Q K V Q P P V E 4 4606 473 E F L S F V P A P 4 4607 474 F L S F V P A P D 4 4608 475 L S F V P A P D G 4 4609 477 F V P A P D G K G 4 4610 484 K G F R M L L A S 4 4611 490 L A S P G A C F K 4 4612 493 P G A C F K L F Q 4 4613 495 A C F K L F Q E K 4 4614 507 G H G R A L L F Q 4 4615 525 T I S I N Q V L S 4 4616 526 I S I N Q V L S N 4 4617 531 V L S N K D L I N 4 4618 538 I N Y N K F V Q S 4 4619 578 K K A T A F F P D 4 4620 607 I N G C C C L E E 4 4621 620 L L E P L G L H C 4 4622 644 V H C G T N V C R 4 4623 5 R I V R V S L E H 3 4624 6 I V R V S L E H P 3 4625 11 L E H P T S A V C 3 4626 26 L V D I Y G S V P 3 4627 27 V D I Y G S V P E 3 4628 35 E G T E M F E V Y 3 4629 39 M F E V Y G T P G 3 4630 51 Y I S P N M E R G 3 4631 58 R G R E R A D T R 3 4632 61 E R A D T R R W R 3 4633 63 A D T R R W R F D 3 4634 73 T L E I I V V M N 3 4635 80 M N S P S N D L N 3 4636 96 Y H S S H E P L P 3 4637 117 I S L D C D L N C 3 4638 129 Q D R N F V D K R 3 4639 133 F V D K R Q W V W 3 4640 135 D K R Q W V W G P 3 4641 137 R Q W V W G P S G 3 4642 140 V W G P S G Y G G 3 4643 146 Y G G I L L V N C 3 4644 181 S V M V L R T Q G 3 4645 194 F D D H K L V L H 3 4646 202 H T S S Y D A K R 3 4647 207 D A K R A Q V F H 3 4648 209 K R A Q V F H I C 3 4649 223 C E A Y R H V L G 3 4650 228 H V L G Q D K V S 3 4651 229 V L G Q D K V S Y 3 4652 233 D K V S Y E V P R 3 4653 245 D E E R F F V E G 3 4654 250 F V E G L S F P D 3 4655 260 G F T G L I S F H 3 4656 288 T V V F R V A P W 3 4657 292 R V A P W I M T P 3 4658 317 T C F V D A V A E 3 4659 329 K A G C K L T I C 3 4660 350 D E M E L G Y V Q 3 4661 357 V Q A P H K T L P 3 4662 362 K T L P V V F D S 3 4663 372 R N G E L Q D F P 3 4664 394 R E P R D R S V S 3 4665 397 R D R S V S G L D 3 4666 405 D S F G N L E V S 3 4667 406 S F G N L E V S P 3 4668 412 V S P P V V A N G 3 4669 445 V V R D F L H A Q 3 4670 449 F L H A Q K V Q P 3 4671 450 L H A Q K V Q P P 3 4672 462 F V D W L A V G H 3 4673 464 D W L A V G H V D 3 4674 465 W L A V G H V D E 3 4675 485 G F R M L L A S P 3 4676 502 E K Q K C G H G R 3 4677 508 H G R A L L F Q G 3 4678 512 L L F Q G V V D D 3 4679 513 L F Q G V V D D E 3 4680 548 I D W N R E V L K 3 4681 549 D W N R E V L K R 3 4682 557 R E L G L A E C D 3 4683 563 E C D I I D I P Q 3 4684 577 R K K A T A F F P 3 4685 587 L V N M L V L G K 3 4686 606 I I N G C C C L E 3 4687 614 E E K V R S L L E 3 4688 615 E K V R S L L E P 3 4689 617 V R S L L E P L G 3 4690 619 S L L E P L G L H 3 4691 629 T F I D D F T P Y 3 4692 630 F I D D F T P Y H 3 4693 637 Y H M L H G E V H 3 4694 639 M L H G E V H C G 3 4695 643 E V H C G T N V C 3 4696 2 S L Q R I V R V S 2 4697 36 G T E M F E V Y G 2 4698 43 Y G T P G V D I Y 2 4699 47 G V D I Y I S P N 2 4700 54 P N M E R G R E R 2 4701 76 I I V V M N S P S 2 4702 77 I V V M N S P S N 2 4703 81 N S P S N D L N D 2 4704 87 L N D S H V Q I S 2 4705 88 N D S H V Q I S Y 2 4706 93 Q I S Y H S S H E 2 4707 113 T C V D I S L D C 2 4708 116 D I S L D C D L N 2 4709 124 N C E G R Q D R N 2 4710 134 V D K R Q W V W G 2 4711 136 K R Q W V W G P S 2 4712 153 N C D R D D P S C 2 4713 154 C D R D D P S C D 2 4714 157 D D P S C D V Q D 2 4715 165 D N C D Q H V H C 2 4716 168 D Q H V H C L Q D 2 4717 171 V H C L Q D L E D 2 4718 198 K L V L H T S S Y 2 4719 211 A Q V F H I C G P 2 4720 213 V F H I C G P E D 2 4721 219 P E D V C E A Y R 2 4722 244 G D E E R F F V E 2 4723 252 E G L S F P D A G 2 4724 266 S F H V T L L D D 2 4725 272 L D D S N E D F S 2 4726 274 D S N E D F S A S 2 4727 293 V A P W I M T P S 2 4728 310 V C R V R N N T C 2 4729 321 D A V A E L A R K 2 4730 323 V A E L A R K A G 2 4731 325 E L A R K A G C K 2 4732 333 K L T I C P Q A E 2 4733 338 P Q A E N R N D R 2 4734 343 R N D R W I Q D E 2 4735 374 G E L Q D F P Y K 2 4736 382 K R I L G P D F G 2 4737 388 D F G Y V T R E P 2 4738 389 F G Y V T R E P R 2 4739 403 G L D S F G N L E 2 4740 407 F G N L E V S P P 2 4741 415 P V V A N G K E Y 2 4742 419 N G K E Y P L G R 2 4743 425 L G R I L I G G N 2 4744 427 R I L I G G N L P 2 4745 430 I G G N L P G S S 2 4746 433 N L P G S S G R R 2 4747 446 V R D F L H A Q K 2 4748 461 L F V D W L A V G 2 4749 486 F R M L L A S P G 2 4750 488 M L L A S P G A C 2 4751 521 E Q V K T I S I N 2 4752 539 N Y N K F V Q S C 2 4753 544 V Q S C I D W N R 2 4754 550 W N R E V L K R E 2 4755 552 R E V L K R E L G 2 4756 556 K R E L G L A E C 2 4757 562 A E C D I I D I P 2 4758 586 D L V N M L V L G 2 4759 592 V L G K H L G I P 2 4760 593 L G K H L G I P K 2 4761 602 P F G P I I N G C 2 4762 611 C C L E E K V R S 2 4763 634 F T P Y H M L H G 2 4764 638 H M L H G E V H C 2 4765 645 H C G T N V C R K 2 4766 648 T N V C R K P F S 2 4767 652 R K P F S F K W W 2 4768 4 Q R I V R V S L E 1 4769 16 S A V C V A G V E 1 4770 22 G V E T L V D I Y 1 4771 24 E T L V D I Y G S 1 4772 38 E M F E V Y G T P 1 4773 52 I S P N M E R G R 1 4774 59 G R E R A D T R R 1 4775 74 L E I I V V M N S 1 4776 75 E I I V V M N S P 1 4777 78 V V M N S P S N D 1 4778 85 N D L N D S H V Q 1 4779 9 I S Y H S S H E P 1 4780 110 L Y L T C V D I S 1 4781 114 C V D I S L D C D 1 4782 118 S L D C D L N C E 1 4783 120 D C D L N C E G R 1 4784 122 D L N C E G R Q D 1 4785 123 L N C E G R Q D R 1 4786 127 G R Q D R N F V D 1 4787 131 R N F V D K R Q W 1 4788 147 G G I L L V N C D 1 4789 149 I L L V N C D R D 1 4790 151 L V N C D R D D P 1 4791 152 V N C D R D D P S 1 4792 160 S C D V Q D N C D 1 4793 164 Q D N C D Q H V H 1 4794 182 V M V L R T Q G P 1 4795 188 Q G P A A L F D D 1 4796 190 P A A L F D D H K 1 4797 197 H K L V L H T S S 1 4798 201 L H T S S Y D A K 1 4799 204 S S Y D A K R A Q 1 4800 210 R A Q V F H I C G 1 4801 212 Q V F H I C G P E 1 4802 220 E D V C E A Y R H 1 4803 226 Y R H V L G Q D K 1 4804 230 L G Q D K V S Y E 1 4805 232 Q D K V S Y E V P 1 4806 237 Y E V P R L H G D 1 4807 238 E V P R L H C D E 1 4808 247 E R F F V E G L S 1 4809 249 F F V E G L S F P 1 4810 255 S F P D A G F T G 1 4811 275 S N E D F S A S P 1 4812 306 L E V Y V C R V R 1 4813 308 V Y V C R V R N N 1 4814 313 V R N N T C F V D 1 4815 331 G C K L T I C P Q 1 4816 335 T I C P Q A E N R 1 4817 336 I C P Q A E N R N 1 4818 354 L G Y V Q A P H K 1 4819 363 T L P V V F D S P 1 4820 365 P V V F D S P R N 1 4821 369 D S P R N G E L Q 1 4822 373 N G E L Q D F P Y 1 4823 375 E L Q D F P Y K R 1 4824 378 D F P Y K R I L G 1 4825 380 P Y K R I L G P D 1 4826 390 G Y V T R E P R D 1 4827 401 V S G L D S F G N 1 4828 416 V V A N G K E Y P 1 4829 424 P L G R I L I G G 1 4830 432 G N L P G S S G R 1 4831 448 D F L H A Q K V Q 1 4832 471 V D E F L S F V P 1 4833 476 S F V P A P D G K 1 4834 479 P A P D G K G F R 1 4835 498 K L F Q E K Q K C 1 4836 500 F Q E K Q K C G H 1 4837 514 F Q G V V D D E Q 1 4838 516 G V V D D E Q V K 1 4839 519 D D E Q V K T I S 1 4840 528 I N Q V L S N K D 1 4841 532 L S N K D L I N Y 1 4842 534 N K D L I N Y N K 1 4843 537 L I N Y N K F V Q 1 4844 542 K F V Q S C I D W 1 4845 560 G L A E C D I I D 1 4846 568 D I P Q L F K T E 1 4847 570 P Q L F K T E R K 1 4848 571 Q L F K T E R K K 1 4849 588 V N M L V L G K H 1 4850 594 G K H L G I P K P 1 4851 597 L G I P K P F G P 1 4852 610 C C C L E E K V R 1 4853 624 L G L H C T F I D 1 4854 625 G L H C T F I D D 1 4855 633 D F T P Y H M L H 1 4856 651 C R K P F S F K W 1 4857 656 S F K W W N M V P 1 4858 184P1E2 v.2: HLA Peptide Scoring Results B 0702 9-mers SYFPEITHI 9 A P L E V Y V C R 14 4859 4 T P S T L A P L E 13 4860 3 M T P S T L A P L 12 4861 1 W I M T P S T L A 11 4862 7 T L A P L E V Y V 10 4863 5 P S T L A P L E V 8 4864 2 I M T P S T L A P 6 4865 6 S T L A P L E V Y 5 4866 8 L A P L E V Y V C 2 4867 184P1E2 v.3: HLA Peptide Scoring Results B 0702 9-mers SYFPEITHI 9 V P D G K G F R M 20 4868 7 V P V P D G K G F 18 4869 1 D E F L S F V P V 10 4870 3 F L S F V P V P D 5 4871 4 L S F V P V P D G 5 4872 2 E F L S F V P V P 4 4873 6 F V P V P D G K G 3 4874 5 S F V P V P D G K 1 4875 8 P V P D G K G F R 1 4876

TABLE XXIX 184P1E2 v.1: HLA Peptide Scoring Results B08 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 612 C L E E K V R S L 29 4877 417 V A N G K E Y P L 25 4878 395 E P R D R S V S G 23 4879 575 T E R K K A T A F 23 4880 599 I P K P F G P I I 23 4881 368 F D S P R N G E L 21 4882 614 E E K V R S L L E 21 4883 326 L A R K A G C K L 20 4884 482 D G K G F R M L L 20 4885 501 Q E K Q K C G H G 20 4886 553 E V L K R E L G L 20 4887 246 E E R F F V E G L 19 4888 62 R A D T R R W R F 18 4889 104 P L A Y A V L Y L 18 4890 263 G L I S F H V T L 18 4891 325 E L A R K A G C K 18 4892 576 E R K K A T A F F 18 4893 3 L Q R I V R V S L 17 4894 102 P L P L A Y A V L 17 4895 142 G P S G Y G C I L 17 4896 256 F P D A G F T G L 17 4897 310 V C R V R N N T C 17 4898 360 P H K T L P V V F 17 4899 520 D E Q V K T I S I 17 4900 531 V L S N K D L I N 17 4901 554 V L K R E L G L A 17 4902 58 R G R E R A D T R 16 4903 111 Y L T C V D I S L 16 4904 379 F P Y K R I L C P 16 4905 480 A P D G K G F R M 16 4906 540 Y N K F V Q S C I 16 4907 591 L V L G K H L G I 16 4908 616 K V R S L L E P L 16 4909 649 N V C R K P F S F 16 4910 56 M E R G R E R A D 15 4911 65 T R R W R F D A T 15 4912 109 V L Y L T C V D I 15 4913 207 D A K R A Q V F H 15 4914 239 V P R L H G D E E 15 4915 264 L I S F H V T L L 15 4916 423 Y P L G R I L I G 15 4917 492 S P G A C F K L F 15 4918 494 G A C F K L F Q E 15 4919 558 E L G L A E C D I 15 4920 184 V L R T Q G P A A 14 4921 191 A A L F D D H K L 14 4922 206 Y D A K R A Q V F 14 4923 329 K A G C K L T I C 14 4924 358 Q A P H K T L P V 14 4925 370 S P R N G E L Q D 14 4926 478 V P A P D G K G F 14 4927 506 C G H G R A L L F 14 4928 547 C I D W N R E V L 14 4929 579 K A T A F F P D L 14 4930 605 P I I N G C C C L 14 4931 622 E P L G L H C T F 14 4932 86 D L N D S H V Q I 13 4933 208 A K R A Q V F H I 13 4934 253 G L S F P D A G F 13 4935 271 L L D D S N E D F 13 4936 331 G C K L T I C P Q 13 4937 339 Q A E N R N D R W 13 4938 499 L F Q E K Q K C G 13 4939 529 N Q V L S N K D L 13 4940 533 S N K D L I N Y N 13 4941 573 F K T E R K K A T 13 4942 623 P L G L H C T F I 13 4943 656 S F K W W N M V P 13 4944 18 V C V A G V E T L 12 4945 95 S Y H S S H E P L 12 4946 134 V D K R Q W V W G 12 4947 194 F D D H K L V L H 12 4948 205 S Y D A K R A Q V 12 4949 234 K V S Y E V P R L 12 4950 241 R L H G D E E R F 12 4951 318 C F V D A V A E L 12 4952 381 Y K R I L G P D F 12 4953 402 S G L D S F G N L 12 4954 419 N G K E Y P L G R 12 4955 426 G R I L I G G N L 12 4956 442 V T Q V V R D F L 12 4957 453 Q K V Q P P V E L 12 4958 458 P V E L F V D W L 12 4959 466 L A V G H V D E F 12 4960 489 L L A S P G A C F 12 4961 538 I N Y N K F V Q S 12 4962 551 N R E V L K R E L 12 4963 583 F F P D L V N M L 12 4964 589 N M L V L G K H L 12 4965 54 P N M E R G R E R 11 4966 79 V M N S P S N D L 11 4967 97 H S S H E P L P L 11 4968 115 V D I S L D C D L 11 4969 143 P S G Y G C I L L 11 4970 166 N C D Q H V H C L 11 4971 177 L E D M S V M V L 11 4972 185 L R T Q G P A A L 11 4973 196 D H K L V L H T S 11 4974 222 V C E A Y R H V L 11 4975 230 L G Q D K V S Y E 11 4976 232 Q D K V S Y E V P 11 4977 244 C D E E R F F V E 11 4978 283 P I F T D T V V F 11 4979 327 A R K A G C K L T 11 4980 346 R W I Q D E M E L 11 4981 356 Y V Q A P H K T L 11 4982 378 D F P Y K R I L G 11 4983 396 P R D R S V S C L 11 4984 437 S S G R R V T Q V 11 4985 450 L H A Q K V Q P P 11 4986 452 A Q K V Q P P V E 11 4987 496 C F K L F Q E K Q 11 4988 504 Q K C G H G R A L 11 4989 518 V D D S Q V K T I 11 4990 52 K T I S I N Q V L 11 4991 552 R E V L K R E L G 11 4992 561 L A E C D I I D I 11 4993 564 C D I I D I P Q L 11 4994 572 L F K T E R K K A 11 4995 585 P D L V N M L V L 11 4996 598 G I P K P F G P I 11 4997 618 R S L L E P L G L 11 4998 1 M S L Q R I V R V 10 4999 4 Q R I V R V S L E 10 5000 32 S V P E G T E M F 10 5001 66 R R W R F D A T L 10 5002 127 G R Q D R N F V D 10 5003 132 N F V D K R Q W V 10 5004 169 Q H V H C L Q D L 10 5005 182 V M V L R T Q G P 10 5006 193 L F D D H K L V L 10 5007 223 C E A Y R H V L G 10 5008 295 P W I M T P S T L 10 5009 298 M T P S T L P P L 10 5010 308 V Y V C R V R N N 10 5011 377 Q D F P Y K R I L 10 5012 380 P Y K R I L G P D 10 5013 421 K E Y P L G R I L 10 5014 436 G S S G R R V T Q 10 5015 460 E L F V D W L A V 10 5016 467 A V G H V D E F L 10 5017 481 P D G K G F R M L 10 5018 491 A S P C A C F K L 10 5019 503 K Q K C G H G R A 10 5020 505 K C G H G R A L L 10 5021 522 Q V K T I S I N Q 10 5022 548 I D W N R S V L K 10 5023 565 D I I D I P Q L F 10 5024 570 P Q L F K T E R K 10 5025 574 K T E R K K A T A 10 5026 577 R K K A T A F F P 10 5027 593 L G K H L G I P K 10 5028 597 L C I P K P F G P 10 5029 613 L E E K V R S L L 10 5030 619 S L L E P L G L H 10 5031 632 D D F T P Y H M L 10 5032 651 C R K P F S F K W 10 5033 654 P F S F K W W N N 10 5034 2 S L Q R I V R V S 9 5035 10 S L E H P T S A V 9 5036 21 A G V E T L V D I 9 5037 101 E P L P L A Y A V 9 5038 133 F V D K R Q W V W 9 5039 152 V N C D R D D P S 9 5040 288 T V V F R V A P W 9 5041 304 P P L E V Y V C R 9 5042 353 E L G Y V Q A P H 9 5043 390 G Y V T R E P R D 9 5044 392 V T R E P R D R S 9 5045 413 S P P V V A N G K 9 5046 422 E Y P L G R I L I 9 5047 439 G R R V T Q V V R 9 5048 443 T Q V V R D F L H 9 5049 457 P P V E L F V D W 9 5050 483 G K G F R M L L A 9 5051 550 W N R E V L K R E 9 5052 555 L K R E L G L A E 9 5053 560 G L A S C D I I D 9 5054 569 I P Q L F K T E R 9 5055 58 F P D L V N M L V 9 5056 647 G T N V C R K P F 9 5057 6 I V R V S L E H P 8 5058 13 H P T S A V C V A 8 5059 42 V Y G T P G V D I 8 5060 45 T P G V D I Y I S 8 5061 53 S P N M E R G R E 8 5062 63 A D T R R W R F D 8 5063 73 T L E I I V V M N 8 5064 82 S P S N D L N D S 8 5065 118 S L D C D L N C E 8 5066 124 N C E G R Q D R N 8 5067 126 E G R Q D R N F V 8 5068 149 I L L V N C D R D 8 5069 218 C P E D V C E A Y 8 5070 229 V L G Q D K V S Y 8 5071 237 Y E V P R L H G D 8 5072 277 E D F S A S P I F 8 5073 282 S P I F T D T V V 8 5074 290 V F R V A P W I M 8 5075 303 L P P L E V Y V C 8 5076 305 P L E V Y V C R V 8 5077 323 V A E L A R K A G 8 5078 324 A E L A R K A G C 8 5079 341 E N R N D R W I Q 8 5080 342 N R N D R W I Q D 8 5081 375 E L Q D F P Y K R 8 5082 386 G P D F G Y V T R 8 5083 393 T R E P R D R S V 8 5084 414 P P V V A N G K E 8 5085 420 G K E Y P L G R I 8 5086 428 I L I G G N L P G 8 5087 438 S G R R V T Q V V 8 5088 445 V V R D F L H A Q 8 5089 449 F L H A Q K V Q P 8 5090 465 W L A V G H V D E 8 5091 512 L L F Q G V V D D 8 5092 536 D L I N Y N K F V 8 5093 648 T N V C R K P F S 8 5094 33 V P E G T E M F E 7 5095 44 G T P G V D I Y I 7 5096 68 W R F D A T L S I 7 5097 75 E I I V V M N S P 7 5098 76 I I V V M N S P S 7 5099 103 L P L A Y A V L Y 7 5100 129 Q D R N F V D K R 7 5101 135 D K R Q W V W G P 7 5102 148 G I L L V N C D R 7 5103 158 D P S C D V Q D N 7 5104 176 D L E D M S V M V 7 5105 189 G P A A L F D D H 7 5106 192 A L F D D H K L V 7 5107 198 K L V L H T S S Y 7 5108 200 V L H T S S Y D A 7 5109 224 E A Y R H V L G Q 7 5110 248 R F F V E G L S F 7 5111 270 T L L D D S N E D 7 5112 289 V V F R V A P W I 7 5113 302 T L P P L E V Y V 7 5114 311 C R V R N N T C F 7 5115 333 K L T I C P Q A E 7 5116 337 C P Q A E N R N D 7 5117 34 N D R W I Q D E M 7 5118 363 T L P V V F D S P 7 5119 364 L P V V F D S P R 7 5120 376 L Q D F P Y K R I 7 5121 384 I L G P D F G Y V 7 5122 403 G L D S F G N L E 7 5123 409 N L E V S P P V V 7 5124 425 L G R I L I G G N 7 5125 441 R V T Q V V R D F 7 5126 45 K V Q P P V E L F 7 5127 456 Q P P V E L F V D 7 5128 469 G H V D E F L S F 7 5129 47 F L S F V P A P D 7 5130 485 G F R M L L A S P 7 5131 488 M L L A S P G A C 7 5132 508 H G R A L L F Q G 7 5133 511 A L L F Q G V V D 7 5134 586 D L V N M L V L G 7 5135 590 M L V L G K H L G 7 5136 592 V L G K H L G I P 7 5137 595 K H L G I P K P F 7 5138 596 H L G I P K P F G 7 5139 601 K P F G P I I N G 7 5140 604 G P I I N C C C C 7 5141 625 G L H C T F I D D 7 5142 626 L H C T F I D D F 7 5143 639 M L H G E V H C G 7 5144 650 V C R K P F S F K 7 5145 16 S A V C V A G V E 6 5146 20 V A G V E T L V D 6 5147 25 T L V D I Y C S V 6 5148 28 D I Y G S V P B G 6 5149 60 R E R A D T R R W 6 5150 64 D T R R W R F D A 6 5151 67 R W R F D A T L E 6 5152 69 R F D A T L E I I 6 5153 71 D A T L E I I V V 6 5154 122 D L N C E G R Q D 6 5155 125 C E G R Q D R N F 6 5156 141 W G P S G Y G C I 6 5157 150 L L V N C D R D D 6 5158 154 C D R D D P S C D 6 5159 173 C L Q D L E D M S 6 5160 186 R T Q C P A A L F 6 5161 225 A Y R H V L G Q D 6 5162 242 L H G D E E R F F 6 5163 257 P D A G F T C L I 6 5164 259 A G F T G L I S F 6 5165 276 N E D F S A S P I 6 5166 280 S A S P I F T D T 6 5167 294 A P W I M T P S T 6 5168 299 T P S T L P P L E 6 5169 312 R V R N N T C F V 6 5170 328 R K A C C K L T I 6 5171 340 A E N R N D R W I 6 5172 359 A P H K T L P V V 6 5173 371 P R N G E L Q D F 6 5174 397 R D R S V S G L D 6 5175 399 R S V S G L D S F 6 5176 424 P L G R I L I G G 6 5177 433 N L P G S S G R R 6 5178 43 L P G S S G R R V 6 5179 498 K L F Q E K Q K C 6 5180 527 S I N Q V L S N K 6 5181 530 Q V L S N K D L I 6 5182 535 K D L I N Y N K F 6 5183 559 L G L A E C D I I 6 5184 571 Q L F K T E R K K 6 5185 620 L L E P L C L H C 6 5186 635 T P Y H M L H G E 6 5187 653 K P F S F K W W N 6 5188 5 R I V R V S L E H 5 5189 93 Q I S Y H S S H E 5 5190 107 Y A V L Y L T C V 5 5191 116 D I S L D C D L N 5 5192 190 P A A L F D D H K 5 5193 210 R A Q V F H I C G 5 5194 215 H I C G P E D V C 5 5195 293 V A P W I M T P S 5 5196 411 B V S P P V V A N 5 5197 451 H A Q K V Q P P V 5 5198 510 R A L L F Q G V V 5 5199 525 T I S I N Q V L S 5 5200 537 L I N Y N K F V Q 5 5201 566 I I D I P Q L F K 5 5202 568 D I P Q L F K T E 5 5203 606 I I N C C C C L E 5 5204 630 F I D D F T P Y H 5 5205 24 E T L V D I Y G S 4 5206 35 E G T E M F E V Y 4 5207 38 E M F E V Y G T P 4 5208 49 D I Y I S P N M E 4 5209 51 Y I S P N M B R G 4 5210 72 A T L E I I V V M 4 5211 98 S S H E P L P L A 4 5212 105 L A Y A V L Y L T 4 5213 217 C C P E D V C E A 4 5214 258 D A G F T G L I S 4 5215 296 W I M T P S T L P 4 5216 307 E V Y V C R V R N 4 5217 321 D A V A E L A R K 4 5218 335 T I C P Q A E N R 4 5219 347 W I Q D E M E L G 4 5220 351 E M E L G Y V Q A 4 5221 361 H K T L P V V F D 4 5222 383 R I L G P D F G Y 4 5223 427 R I L I G G N L P 4 5224 429 L I G G N L P G S 4 5225 473 E F L S F V P A P 4 5226 479 P A P D G K G F R 4 5227 490 L A S P G A C F K 4 5228 546 S C I D W N R E V 4 5229 581 T A F F P D L V N 4 5230 9 V S L E H P T S A 3 5231 12 E H P T S A V C V 3 5232 17 A V C V A G V F T 3 5233 27 V D I Y G S V P E 3 5234 50 I Y I S P N M E R 3 5235 84 S N D L N D S H V 3 5236 99 S H E P L P L A Y 3 5237 144 S G Y G G I L L V 3 5238 147 G G I L L V N C D 3 5239 160 S C D V Q D N C D 3 5240 171 V H C L Q D L E D 3 5241 178 E D M S V M V L R 3 5242 181 S V M V L R T Q G 3 5243 204 S S Y D A K R A Q 3 5244 235 V S Y E V P R L H 3 5245 236 S Y E V P R L H G 3 5246 243 H G D E E R F F V 3 5247 249 F F V E G L S F P 3 5248 252 E G L S F P D A G 3 5249 266 S F H V T L L D D 3 5250 274 D S N E D F S A S 3 5251 284 I F T D T V V F R 3 5252 287 D T V V F R V A P 3 5253 317 T C F V D A V A E 3 5254 320 V D A V A E L A R 3 5255 348 I Q D E M E L G Y 3 5256 406 S F G N L E V S P 3 5257 407 F G N L E V S P P 3 5258 408 G N L E V S P P V 3 5259 463 V D W L A V C H V 3 5260 470 H V D E F L S F V 3 5261 514 F Q G V V D D E Q 3 5262 521 B Q V K T I S I N 3 5263 59 G K H L G T P K P 3 5264 611 C C L E E K V R S 3 5265 615 E K V R S L L E P 3 5266 644 V H C G T N V C R 3 5267 14 P T S A V C V A G 2 5268 15 T S A V C V A G V 2 5269 22 G V E T L V D I Y 2 5270 23 V E T L V D I Y G 2 5271 31 G S V P E G T E M 2 5272 36 G T E M F E V Y G 2 5273 40 F E V Y G T P G V 2 5274 41 E V Y G T P G V D 2 5275 47 G V D T Y I S P N 2 5276 48 V D I Y I S P N H 2 5277 57 E R G R E R A D T 2 5278 61 E R A D T R R W R 2 5279 89 D S H V Q I S Y H 2 5280 90 S H V Q I S Y H S 2 5281 94 I S Y R S S H E P 2 5282 100 H E P L P L A Y A 2 5283 112 L T C V D I S L D 2 5284 119 L D C D L N C E G 2 5285 123 L N C E G R Q D R 2 5286 175 Q D L E D M S V M 2 5287 179 D M S V M V L R T 2 5288 197 H K L V L H T S S 2 5289 203 T S S Y D A K R A 2 5290 213 V F H I C C P F D 2 5291 216 I C G P E D V C E 2 5292 220 E D V C E A Y R H 2 5293 221 D V C E A Y R H V 2 5294 228 H V L G Q D K V S 2 5295 231 G Q D K V S Y E V 2 5296 238 E V P R L H G D E 2 5297 245 D E E R F F V E G 2 5298 247 E R F F V E G L S 2 5299 251 V E G L S F P D A 2 5300 255 S F P D A G F T G 2 5301 260 G F T G L I S F H 2 5302 261 F T G L I S F H V 2 5303 268 H V T L L D D S N 2 5304 269 V T L L D D S N E 2 5305 275 S N E D F S A S P 2 5306 279 F S A S P I F T D 2 5307 285 F T D T V V F R V 2 5308 300 P S T L P P L E V 2 5309 301 S T L P P L E V Y 2 5310 315 N N T C F V D A V 2 5311 322 A V A E L A R K A 2 5312 338 P Q A E N R N D R 2 5313 350 D E M E L G Y V Q 2 5314 352 M H L G Y V Q A P 2 5315 372 R N G E L Q D F P 2 5316 388 D F G Y V T R E P 2 5317 389 F G Y V T R E P R 2 5318 400 S V S C L D S F G 2 5319 401 V S G L D S F G N 2 5320 404 L D S F G N L E V 2 5321 412 V S P P V V A N G 2 5322 415 P V V A N G K E Y 2 5323 431 G G N L P G S S G 2 5324 44 R R V T Q V V R D 2 5325 462 F V D W L A V G H 2 5326 468 V G H V D E F L S 2 5327 472 D E F L S F V P A 2 5328 476 S F V P A P D C K 2 5329 486 F R M L L A S P G 2 5330 497 F K L F Q E K Q K 2 5331 502 E K Q K C G H G R 2 5332 509 G R A L L F Q G V 2 5333 517 V V D D E Q V K T 2 5334 523 V K T I S I N Q V 2 5335 526 I S I N Q V L S N 2 5336 528 I N Q V L S N K D 2 5337 53 N K D L I N Y N K 2 5338 543 F V Q S C I D W N 2 5339 556 K R E L G L A E C 2 5340 563 E C D I I D I P Q 2 5341 588 V N M L V L G K H 2 5342 603 F C P I I N C C C 2 5343 607 I N G O C O L E E 2 5344 610 C C C L E E K V R 2 5345 617 V R S L L E P L G 2 5346 63 F T P Y H M L H G 2 5347 638 H M L H G E V H C 2 5348 640 L H G E V H C G T 2 5349 641 H G E V H C G T N 2 5350 643 E V H C G T N V C 2 5351 645 H C G T N V C R K 2 5352 7 V R V S L E H P T 1 5353 8 R V S L E H P T S 1 5354 29 I Y G S V P E G T 1 5355 30 Y G S V P E G T E 1 5356 34 P E G T E M F E V 1 5357 37 T E H F E V Y G T 1 5358 39 M F E V Y G T P G 1 5359 43 Y G T P G V D I Y 1 5360 52 I S P N M E R G R 1 5361 59 G R E R A D T R R 1 5362 70 F D A T L E I I V 1 5363 7 L E I I V V N N S 1 5364 77 I V V M N S P S N 1 5365 78 V V M N S P S N D 1 5366 80 N N S P S N D L N 1 5367 83 P S N D L N D S H 1 5368 87 L N D S H V Q I S 1 5369 91 H V Q I S Y H S S 1 5370 92 V Q I S Y H S S H 1 5371 106 A Y A V L Y L T C 1 5372 108 A V L Y L T C V D 1 5373 110 L Y L T C V D I S 1 5374 117 I S L D C D L N C 1 5375 120 D C D L N C F O R 1 5376 128 R Q D R N F V D K 1 5377 130 D R N F V D K R Q 1 5378 131 R N F V D K R Q W 1 5379 137 R Q W V W G P S G 1 5380 140 V W G P S G Y G G 1 5381 145 G Y G G I L L V N 1 5382 146 Y G G I L L V N C 1 5383 157 D D P S C D V Q D 1 5384 161 C D V Q D N C D Q 1 5385 163 V Q D N C D Q H V 1 5386 165 D N C D Q H V H C 1 5387 168 D Q H V H C L Q D 1 5388 170 H V H C L Q D L E 1 5389 172 H C L Q D L E D M 1 5390 174 L Q D L E D M S V 1 5391 195 D D H K L V L H T 1 5392 201 L H T S S Y D A K 1 5393 202 H T S S Y D A K R 1 5394 211 A Q V F H I C G P 1 5395 214 F H I C G P E D V 1 5396 219 P E D V C E A Y R 1 5397 226 Y R H V L G Q D K 1 5398 227 R H V L G Q D K V 1 5399 233 D K V S Y E V P R 1 5400 240 P R L H G D E E R 1 5401 250 F V E C L S F P D 1 5402 265 I S F H V T L L D 1 5403 267 F H V T L L D D S 1 5404 286 T D T V V F R V A 1 5405 291 F F V A P W I M T 1 5406 292 R V A P W I M T P 1 5407 29 I M T P S T L P P 1 5408 306 L E V Y V C R V R 1 5409 313 V R N N T C F V D 1 5410 31 R N N T C F V D A 1 5411 319 F V D A V A E L A 1 5412 334 L T I C P Q A E N 1 5413 336 I C P Q A E N R N 1 5414 343 R N D R W I Q D E 1 5415 354 L G Y V Q A P H K 1 5416 355 G Y V Q A P H K T 1 5417 357 V Q A P H K T L P 1 5418 362 K T L P V V F D S 1 5419 366 V V F D S P R N G 1 5420 367 V F D S P R N C E 1 5421 373 N G E L Q D F P Y 1 5422 374 G E L Q D F P Y K 1 5423 382 K R I L G P D F G 1 5424 387 P D F G Y V T R E 1 5425 398 D R S V S G L D S 1 5426 410 L E V S P P V V A 1 5427 416 V V A N G K E Y P 1 5428 430 I G G N L P G S S 1 5429 432 G N L P G S S G R 1 5430 446 V R D F L H A Q K 1 5431 447 R D F L H A Q K V 1 5432 448 D F L H A Q K V Q 1 5433 455 V Q P P V E L F V 1 5434 459 V F L F V D W L A 1 5435 471 V D E F L S F V P 1 5436 475 L S F V P A P D G 1 5437 477 F V P A P D G K G 1 5438 484 K G F R M L L A S 1 5439 487 R M L L A S P G A 1 5440 495 A C F K L F Q E K 1 5441 500 F Q E K Q K C G H 1 5442 507 G H G R A L L F Q 1 5443 513 L F Q C V V D D E 1 5444 515 Q G V V D D E Q V 1 5445 516 C V V D D F Q V K 1 5446 539 N Y N K F V Q S C 1 5447 541 N K F V Q S C I D 1 5448 544 V Q S C I D W N R 1 5449 549 D W N R E V L K R 1 5450 562 A F C D I I D I P 1 5451 567 I D I P Q L F K T 1 5452 582 A F F P D L V N M 1 5453 587 L V N M L V L G K 1 5454 602 P F G P I I N G C 1 5455 608 N G C C C L F E K 1 5456 609 G C C C L E E K V 1 5457 621 L E P L G L H C T 1 5458 627 H C T F I D D F T 1 5459 631 I D D F T P Y H M 1 5460 636 P Y H M L H G E V 1 5461 637 Y H M L H G E V H 1 5462 642 G E V H C G T N V 1 5463 652 R K P F S F K W W 1 5464 655 F S F K W W N M V 1 5465 184P1E2 v.2: HLA Peptide Scoring Results B08 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 3 M T P S T L A P L 10 5466 9 A P L E V Y V C R 9 5467 7 T L A P L E V Y V 7 5468 4 T P S T L A P L E 6 5469 8 L A P L E V Y V C 6 5470 1 W I M T P S T L A 4 5471 2 I M T P S T L A P 2 5472 5 P S T L A P L E V 2 5473 6 S T L A P L E V Y 2 5474 184P1E2 v.3: HLA Peptide Scoring Results B08 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 9 V P D G K G F R M 17 5475 7 V P V P D G K G F 14 5476 3 F L S F V P V P D 8 5477 2 E F L S F V P V P 3 5478 1 D E F L S F V P V 2 5479 4 L S F V P V P D G 2 5480 5 S F V P V P D C K 2 5481 6 F V P V P D G K G 2 5482

TABLE XXX 184P1E2 v.1: HLA Peptide Scoring Results B1510 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 360 P H K T L P V V F 21 5483 169 Q H V H C L Q D L 20 5484 242 L H G D E E R F F 19 5485 469 G H V D E F L S F 18 5486 595 K H L C I P K P F 18 5487 626 L H C T F I D D F 17 5488 453 Q K V Q P P V E L 16 5489 551 N R E V L K R E L 16 5490 99 S H F P L P L A Y 15 5491 23 K V S Y F V P R L 15 5492 377 Q D F P Y K R I L 15 5493 585 P D L V N M L V L 15 5494 612 C L E E K V R S L 15 5495 185 L R T Q G P A A L 14 5496 193 L F D D H K L V L 14 5497 222 V C E A Y R H V L 14 5498 263 G L I S F H V T L 14 5499 368 F D S P R N G E L 14 5500 421 K E Y P L G R I L 14 5501 481 P D G K G F R M L 14 5502 504 Q K C G H G R A L 14 5503 547 C I D W N R E V L 14 5504 3 L Q R I V R V S L 13 5505 12 E H P T S A V C V 13 5506 18 V C V A G V E T L 13 5507 96 Y H S S H E P L P 13 5508 142 G P S G Y G G I L 13 5509 177 L E D N S V N V L 13 5510 318 C F V D A V A E L 13 5511 356 Y V Q A P H K T L 13 5512 450 L H A Q K V Q P P 13 5513 613 L E E K V R S L L 13 5514 637 Y H M L H G E V H 13 5515 644 V H C G T N V C R 13 5516 72 A T L E I I V V H 12 5517 97 H S S H E P L P L 12 5518 102 P L P L A Y A V L 12 5519 10 P L A Y A V L Y L 12 5520 166 N C D Q H V H C L 12 5521 214 F H I C G P E D V 12 5522 246 E E R F F V E G L 12 5523 264 L I S F H V T L L 12 5524 295 P W I M T P S T L 12 5525 346 R W I Q D F N E L 12 5526 442 V T Q V V R D F L 12 5527 458 P V E L F V D W L 12 5528 482 D G K G F R M L L 12 5529 505 K C G H G R A L L 12 5530 52 K T I S I N Q V L 12 5531 553 E V L K R E L G L 12 5532 56 C D I I D I P Q L 12 5533 583 F F P D L V N M L 12 5534 6 R R W R F D A T L 11 5535 79 V M N S P S N D L 11 5536 90 S H V Q I S Y H S 11 5537 111 Y L T C V D I S L 11 5538 143 P S G Y G G I L L 11 5539 171 V H C L Q D L E D 11 5540 196 D H K L V L H T S 11 5541 201 L H T S S Y D A K 11 5542 206 Y D A K R A Q V F 11 5543 227 R H V L G Q D K V 11 5544 256 F P D A G F T G L 11 5545 298 M T P S T L P P L 11 5546 326 L A R K A G C K L 11 5547 396 P R D R S V S G L 11 5548 402 S G L D S F G N L 11 5549 417 V A N G K E Y P L 11 5550 426 G R I L I G G N L 11 5551 491 A S P G A C F K L 11 5552 507 G H G R A L L F Q 11 5553 579 K A T A F F P D L 11 5554 589 N M L V L G K H L 11 5555 605 P I I N G C C C L 11 5556 618 R S L L E P L G L 11 5557 632 D D F T P Y H M L 11 5558 640 L H G E V H C G T 11 5559 31 G S V P E G T F M 10 5560 95 S Y H S S H E P L 10 5561 115 V D I S L D C D L 10 5562 175 Q D L F D N S V M 10 5563 191 A A L F D D H K L 10 5564 267 F H V T L L D D S 10 5565 283 P I F T D T V V F 10 5566 441 R V T Q V V R D F 10 5567 454 K V Q P P V E L F 10 5568 467 A V G H V D E F L 10 5569 529 N Q V L S N K D L 10 5570 582 A F F P D L V N M 10 5571 616 K V R S L L E P L 10 5572 62 R A D T R R W R F 9 5573 241 R L H G D E E R F 9 5574 253 C L S F P D A G F 9 5575 411 E V S P P V V A N 9 5576 466 L A V G H V D E F 9 5577 478 V P A P D G K G F 9 5578 480 A P D G K G F R M 9 5579 575 T E R K K A T A F 9 5580 622 E P L G L H C T F 9 5581 631 I D D F T P Y H M 9 5582 647 G T N V C R K P F 9 5583 32 S V P E G T E M F 8 5584 51 Y I S P N M E R G 8 5585 125 C E G R Q D R N F 8 5586 186 R T Q G P A A L F 8 5587 277 E D F S A S P I F 8 5588 290 V F R V A P W I M 8 5589 381 Y K R I L G P D F 8 5590 489 L L A S P G A C F 8 5591 565 D I I D I P Q L F 8 5592 576 H R K K A T A F F 8 5593 48 V D I Y I S P N M 7 5594 172 H C L Q D L E D M 7 5595 248 R F F V E C L S F 7 5596 259 A G F T G L I S F 7 5597 271 L L D D S N E D F 7 5598 307 E V Y V C R V R N 7 5599 311 C R V R N N T C F 7 5600 344 N D R W I Q D E M 7 5601 371 P R N G H L Q D F 7 5602 399 R S V S G L D S F 7 5603 435 P G S S G R R V T 7 5604 436 G S S C R R V T Q 7 5605 506 C G H G R A L L F 7 5606 535 K D L I N Y N K F 7 5607 649 N V C R K P F S F 7 5608 654 P F S F K W W N N 7 5609 1 M S L Q R I V R V 6 5610 61 E R A D T R R W R 6 5611 149 I L L V N C D R D 6 5612 216 I C G P E D V C E 6 5613 284 I F T D T V V F R 6 5614 286 T D T V V F R V A 6 5615 393 T R E P R D R S V 6 5616 409 N L H V S P P V V 6 5617 410 L E V S P P V V A 6 5618 439 G R R V T Q V V R 6 5619 492 S P G A C F K L F 6 5620 611 C C L E E K V R S 6 5621 2 S L Q R I V R V S 5 5622 30 Y G S V P E G T E 5 5623 41 E V Y G T P G V D 5 5624 43 Y G T P G V D I Y 5 5625 55 N M E R G R E R A 5 5626 73 T L H I I V V N N 5 5627 179 D M S V M V L R T 5 5628 204 S S Y D A K R A Q 5 5629 244 G D E E R F F V E 5 5630 287 D T V V F R V A P 5 5631 292 R V A P W I M T P 5 5632 301 S T L P P L E V Y 5 5633 302 T L P P L E V Y V 5 5634 305 P L E V Y V C R V 5 5635 317 T C F V D A V A E 5 5636 336 I C P Q A E N R N 5 5637 351 E N H L C Y V Q A 5 5638 386 G P D F G Y V T R 5 5639 392 V T R H P R D R S 5 5640 420 G K E Y P L G R I 5 5641 440 R R V T Q V V R D 5 5642 452 A Q K V Q P P V E 5 5643 465 W L A V G H V D E 5 5644 512 L L F Q G V V D D 5 5645 525 T I S I N Q V L S 5 5646 599 I P K P F G P I I 5 5647 11 L E H P T S A V C 4 5648 14 P T S A V C V A G 4 5649 15 T S A V C V A G V 4 5650 17 A V C V A G V E T 4 5651 28 D I Y G S V P E G 4 5652 35 E G T E M F E V Y 4 5653 36 G T H M F E V Y G 4 5654 50 I Y I S P N M E R 4 5655 52 I S P N M H R G R 4 5656 54 P N M E R G R E R 4 5657 56 M E R G R E R A D 4 5658 59 G R E R A D T R R 4 5659 60 R E R A D T R R W 4 5660 77 I V V M N S P S N 4 5661 101 E P L P L A Y A V 4 5662 124 N C E C R Q D R N 4 5663 127 C R Q D R N F V D 4 5664 131 R N F V D K R Q W 4 5665 145 C Y G G I L L V N 4 5666 156 R D D P S C D V Q 4 5667 176 D L E D M S V M V 4 5668 178 E D M S V M V L R 4 5669 203 T S S Y D A K R A 4 5670 215 H I C G P E D V C 4 5671 218 G P E D V C E A Y 4 5672 229 V L G Q D K V S Y 4 5673 235 V S Y E V P R L H 4 5674 236 S Y E V P R L H G 4 5675 245 D E E R F F V E G 4 5676 279 F S A S P I F T D 4 5677 297 I M T P S T L P P 4 5678 299 T P S T L P P L E 4 5679 306 L E V Y V C R V R 4 5680 322 A V A S L A R K A 4 5681 328 R K A G C K L T I 4 5682 338 P Q A E N R N D R 4 5683 357 V Q A P H K T L P 4 5684 359 A P H K T L P V V 4 5685 361 H K T L P V V F D 4 5686 366 V V F D S P R N G 4 5687 384 I L G P D F G Y V 4 5688 387 P D F G Y V T R E 4 5689 390 G Y V T R E P R D 4 5690 391 Y V T R E P R D R 4 5691 395 E P R D R S V S G 4 5692 405 D S F G N L E V S 4 5693 428 I L I G G N L P G 4 5694 432 C N L P G S S G R 4 5695 434 L P G S S C R R V 4 5696 473 E F L S F V P A P 4 5697 490 L A S P G A C F K 4 5698 511 A L L F Q G V V D 4 5699 516 G V V D D E Q V K 4 5700 537 L I N Y N K F V Q 4 5701 538 I N Y N K F V Q S 4 5702 546 S C I D W N R E V 4 5703 548 I D W N R K V L K 4 5704 567 I D I P Q L F K T 4 5705 569 I P Q L F K T E R 4 5706 581 T A F F P D L V N 4 5707 594 G K H L G I P K P 4 5708 643 E V H C G T N V C 4 5709 645 H C G T N V C R K 4 5710 6 I V R V S L E H P 3 5711 8 R V S L E H P T S 3 5712 10 S L E H P T S A V 3 5713 13 H P T S A V C V A 3 5714 20 V A G V E T L V D 3 5715 21 A G V E T L V D I 3 5716 22 G V E T L V D I Y 3 5717 24 E T L V D I Y G S 3 5718 27 V D I Y G S V P E 3 5719 29 I Y G S V P E G T 3 5720 38 E M F E V Y G T P 3 5721 42 V Y G T P G V D I 3 5722 45 T P G V D I Y I S 3 5723 53 S P N M E R G R E 3 5724 71 D A T L E T I V V 3 5725 75 E I I V V M N S P 3 5726 76 I I V V N N S P S 3 5727 80 M N S P S N D L N 3 5728 86 D L N D S H V Q I 3 5729 94 I S Y H S S H E P 3 5730 98 S S H E P L P L A 3 5731 106 A Y A V L Y L T C 3 5732 117 I S L D C D L N C 3 5733 123 L N C S G R Q D R 3 5734 126 E G R Q D R N F V 3 5735 128 R Q D R N F V D K 3 5736 133 F V D K R Q W V W 3 5737 144 S G Y G G I L L V 3 5738 146 Y G G I L L V N C 3 5739 165 D N C D Q H V H C 3 5740 180 M S V N V L R T Q 3 5741 187 T Q C P A A L F D 3 5742 217 C G P E D V C E A 3 5743 220 E D V C E A Y R H 3 5744 221 D V C E A Y R H V 3 5745 223 C E A Y R H V L G 3 5746 228 H V L G Q D K V S 3 5747 231 G Q D K V S Y E V 3 5748 232 Q D K V S Y E V P 3 5749 237 Y E V P R L H G D 3 5750 252 E G L S F P D A G 3 5751 260 G F T G L I S F H 3 5752 262 T G B I S F H V T 3 5753 270 T L L D D S N E D 3 5754 280 S A S P I F T D T 3 5755 285 F T D T V V F R V 3 5756 300 P S T L P P L E V 3 5757 303 L P P B E V Y V C 3 5758 304 P P L E V Y V C R 3 5759 308 V Y V C R V R N N 3 5760 320 V D A V A E L A R 3 5761 323 V A E L A R K A G 3 5762 335 T I C P Q A E N R 3 5763 339 Q A E N R N D R W 3 5764 340 A E N R N D R W I 3 5765 348 I Q D E M E L C Y 3 5766 350 D E M E L G Y V Q 3 5767 352 M E L C Y V Q A P 3 5768 355 G Y V Q A P H K T 3 5769 362 K T L P V V F D S 3 5770 365 P V V F D S P R N 3 5771 374 C E L Q D F P Y K 3 5772 375 E L Q D F P Y K R 3 5773 376 L Q D F P Y K R I 3 5774 385 L G P D F G Y V T 3 5775 388 D F G Y V T R E P 3 5776 394 R E P R D R S V S 3 5777 404 L D S F G N L E V 3 5778 408 C N L E V S P P V 3 5779 412 V S P P V V A N G 3 5780 416 V V A N C K E Y P 3 5781 422 E Y P L G R I L I 3 5782 423 Y P L C R I L I G 3 5783 429 L I C C N L P G S 3 5784 430 I G C N L P G S S 3 5785 433 N L P C S S G R R 3 5786 449 F L H A Q K V Q P 3 5787 456 Q P P V E L F V D 3 5788 457 P P V E L F V D W 3 5789 460 E L F V D W L A V 3 5790 461 L F V D W L A V G 3 5791 471 V D E F L S F V P 3 5792 475 L S F V P A P D G 3 5793 476 S F V P A P D C K 3 5794 479 P A P D C K C F R 3 5795 500 F Q E K Q K C C H 3 5796 503 K Q K C G H C R A 3 5797 517 V V D D E Q V K T 3 5798 518 V D D E Q V K T I 3 5799 519 D D E Q V K T I S 3 5800 521 E Q V K T I S I N 3 5801 526 I S I N Q V L S N 3 5802 528 I N Q V L S N K D 3 5803 550 W N R E V L K R E 3 5804 556 K R E L G L A E C 3 5805 560 G L A E C D I I D 3 5806 566 I I D I P Q L F K 3 5807 571 Q L F K T E R K K 3 5808 573 F K T E R K K A T 3 5809 574 K T E R K K A T A 3 5810 596 H L C I P K P F G 3 5811 597 L G I P K P F G P 3 5812 598 C I P K P F G P I 3 5813 601 K P F G P I I N G 3 5814 602 P F G P I I N G C 3 5815 606 I I N G C C C L E 3 5816 607 I N G C C C L E E 3 5817 620 L L E P L G L H C 3 5818 638 H M L H G E V H C 3 5819 641 H G E V H C C T N 3 5820 648 T N V C R K P F S 3 5821 4 Q R I V R V S L E 2 5822 9 V S L E H P T S A 2 5823 16 S A V C V A C V E 2 5824 19 C V A G V E T L V 2 5825 25 T L V D I Y G S V 2 5826 26 L V D I Y G S V P 2 5827 33 V P E G T E M F E 2 5828 34 P E G T E M F E V 2 5829 37 T E M F E V Y G T 2 5830 39 M F E V Y C T P G 2 5831 40 F E V Y C T P G V 2 5832 44 C T P C V D I Y I 2 5833 47 G V D I Y I S P N 2 5834 57 E R C R E R A D T 2 5835 58 R G R E R A D T R 2 5836 63 A D T R R W R F D 2 5837 65 T R R W R F D A T 2 5838 68 W R F D A T L E I 2 5839 85 N D L N D S H V Q 2 5840 89 D S H V Q I S Y H 2 5841 103 L P L A Y A V L Y 2 5842 108 A V L Y L T C V D 2 5843 109 V L Y L T C V D I 2 5844 112 L T C V D I S L D 2 5845 113 T C V D I S L D C 2 5846 119 L D C D L N C E G 2 5847 121 C D L N C E C K Q 2 5848 122 D L N C F G R Q D 2 5849 130 D R N F V D K R Q 2 5850 132 N F V D K R Q W V 2 5851 134 V D K R Q W V W G 2 5852 135 D K R Q W V W G P 2 5853 137 R Q W V W G P S G 2 5854 138 Q W V W G P S G Y 2 5855 139 W V W G P S G Y G 2 5856 140 V W G P S G Y G G 2 5857 147 G G T L L V N C D 2 5858 150 L L V N C D R D D 2 5859 154 C D R D D P S C D 2 5860 155 D R D D P S C D V 2 5861 157 D D P S C D V Q D 2 5862 158 D P S C D V Q D N 2 5863 162 D V Q D N C D Q H 2 5864 164 Q D N C D Q H V H 2 5865 181 S V M V L R T Q G 2 5866 184 V L R T Q G P A A 2 5867 189 G P A A L F D D H 2 5868 194 F D D H K L V L H 2 5869 195 D D H K L V L H T 2 5870 207 D A K R A Q V F H 2 5871 209 K R A Q V F H I C 2 5872 213 V F H I C G P E D 2 5873 224 E A Y R H V L G Q 2 5874 226 Y R H V L G Q D K 2 5875 230 L G Q D K V S Y E 2 5876 233 D K V S Y E V P R 2 5877 240 P R L H G D E E R 2 5878 243 H G D E E R F F V 2 5879 249 F F V E G L S F P 2 5880 250 F V E G L S F P D 2 5881 254 L S F P D A G F T 2 5882 255 S F P D A G F T G 2 5883 257 P D A G F T G L I 2 5884 265 I S F H V T L L D 2 5885 274 D S N E D F S A S 2 5886 275 S N E D F S A S P 2 5887 278 D F S A S P I F T 2 5888 282 S P I F T D T V V 2 5889 288 T V V F R V A P W 2 5890 309 Y V C R V R N N T 2 5891 310 V C R V R N N T C 2 5892 313 V R N N T C F V D 2 5893 314 R N N T C F V D A 2 5894 315 N N T C F V D A V 2 5895 316 N T C F V D A V A 2 5896 321 D A V A E L A R K 2 5897 325 E L A R K A G C K 2 5898 331 G C K L T I C P Q 2 5899 333 K L T I C P Q A E 2 5900 334 L T I C P Q A E N 2 5901 337 C P Q A E N R N D 2 5902 341 E N R N D R W I Q 2 5903 347 W I Q D E M F L G 2 5904 354 L G Y V Q A P H K 2 5905 363 T L P V V F D S P 2 5906 367 V F D S P R N G E 2 5907 379 F P Y K R I L G P 2 5908 382 K R I L G P D F G 2 5909 383 R I L G P D F G Y 2 5910 389 F G Y V T R E P R 2 5911 398 D R S V S G L D S 2 5912 400 S V S G L D S F G 2 5913 406 S F G N L E V S P 2 5914 415 P V V A N G K E Y 2 5915 418 A N G K E Y P L G 2 5916 419 N G K E Y P L G R 2 5917 431 G G N L P G S S G 2 5918 438 S G R R V T Q V V 2 5919 443 T Q V V R D F L H 2 5920 445 V V R D F L H A Q 2 5921 448 D F L H A Q K V Q 2 5922 451 H A Q K V Q P P V 2 5923 455 V Q P P V E L F V 2 5924 462 F V D W L A V G H 2 5925 464 D W L A V G H V D 2 5926 472 D E F L S F V P A 2 5927 474 F L S F V P A P D 2 5928 483 G K G F R M L L A 2 5929 488 M L L A S P G A C 2 5930 493 P G A C F K L F Q 2 5931 495 A C F K L F Q E K 2 5932 498 K L F Q E K Q K C 2 5933 502 E K Q K C G H G R 2 5934 509 G R A L L F Q G V 2 5935 510 R A L L F Q G V V 2 5936 513 L F Q G V V D D E 2 5937 514 F Q G V V D D E Q 2 5938 530 Q V L S N K D L I 2 5939 533 S N K D L I N Y N 2 5940 539 N Y N K F V Q S C 2 5941 545 Q S C I D W N R E 2 5942 555 L K R E L C L A E 2 5943 561 L A H C D I I D I 2 5944 562 A E C D I I D I P 2 5945 568 D I P Q L F K T E 2 5946 570 P Q L F K T E R K 2 5947 580 A T A F F P D L V 2 5948 586 D L V N M L V L G 2 5949 590 M L V L G K H L G 2 5950 600 P K P F G P I I N 2 5951 60 G P I I N G C C C 2 5952 61 C C C L H E K V R 2 5953 61 E E K V R S L L E 2 5954 615 E K V R S L L E P 2 5955 617 V R S L L E P L G 2 5956 619 S L L E P L G L H 2 5957 629 T F I D D F T P Y 2 5958 630 F I D D F T P Y H 2 5959 633 D F T P Y H M L H 2 5960 639 M L H G E V H C G 2 5961 646 C G T N V C R K P 2 5962 650 V C R K P F S F K 2 5963 651 C R K P F S F K W 2 5964 656 S F K W W N M V P 2 5965 5 R I V R V S L E H 1 5966 46 P G V D I Y I S P 1 5967 49 D I Y I S P N M E 1 5968 64 D T R R W R F D A 1 5969 70 F D A T L E I I V 1 5970 74 L E I I V V M N S 1 5971 78 V V M N S P S N D 1 5972 81 N S P S N D L N D 1 5973 82 S P S N D L N D S 1 5974 83 P S N D L N D S H 1 5975 84 S N D L N D S H V 1 5976 87 L N D S H V Q I S 1 5977 88 N D S H V Q I S Y 1 5978 93 Q I S Y H S S H E 1 5979 100 H E P L P L A Y A 1 5980 107 Y A V L Y L T C V 1 5981 110 L Y L T C V D I S 1 5982 116 D I S L D C D L N 1 5983 120 D C D L N C H C R 1 5984 129 Q D R N F V D K R 1 5985 141 W C P S G Y G G I 1 5986 148 G I L L V N C D R 1 5987 151 L V N C D R D D P 1 5988 152 V N C D R D D P S 1 5989 153 N C D R D D P S C 1 5990 159 P S C D V Q D N C 1 5991 160 S C D V Q D N C D 1 5992 161 C D V Q D N C D Q 1 5993 168 D Q H V H C L Q D 1 5994 173 C L Q D L E D M S 1 5995 190 P A A L F D D H K 1 5996 192 A L F D D H K L V 1 5997 197 H K L V L H T S S 1 5998 202 H T S S Y D A K R 1 5999 205 S Y D A K R A Q V 1 6000 208 A K R A Q V F H I 1 6001 210 R A Q V F H I C C 1 6002 211 A Q V F H I C G P 1 6003 219 P E D V C H A Y R 1 6004 238 H V P R L H G D E 1 6005 239 V P R L H G D E E 1 6006 247 E R F F V E G L S 1 6007 251 V E G L S F P D A 1 6008 266 S F H V T L L D D 1 6009 272 L D D S N E D F S 1 6010 273 D D S N E D F S A 1 6011 281 A S P I F T D T V 1 6012 289 V V F R V A P W I 1 6013 291 F R V A P W I M T 1 6014 293 V A P W I M T P S 1 6015 294 A P W I M T P S T 1 6016 296 W I M T P S T L P 1 6017 312 R V R N N T C F V 1 6018 324 A E L A R K A G C 1 6019 327 A R K A G C K L T 1 6020 330 A G C K L T I C P 1 6021 332 C K L T I C P Q A 1 6022 342 N R N D R W I Q D 1 6023 343 R N D R W I Q D E 1 6024 349 Q D E M E L G Y V 1 6025 353 E L G Y V Q A P H 1 6026 364 L P V V F D S P R 1 6027 369 D S P R N G E L Q 1 6028 370 S P R N G E L Q D 1 6029 372 R N C E L Q D F P 1 6030 373 N C H L Q D F P Y 1 6031 378 D F P Y K R I L C 1 6032 403 C L D S F C N L E 1 6033 407 F G N L E V S P P 1 6034 413 S P P V V A N G K 1 6035 414 P P V V A N G K E 1 6036 425 L G R I L I G G N 1 6037 427 R I L I G G N L P 1 6038 437 S S G R R V T Q V 1 6039 463 V D W L A V G H V 1 6040 468 V G H V D E F L S 1 6041 470 H V D E F L S F V 1 6042 477 F V P A P D G K G 1 6043 484 K G F R M L L A S 1 6044 485 G F R M L L A S P 1 6045 487 R M L L A S P G A 1 6046 494 G A C F K L F Q E 1 6047 499 L F Q E K Q K C G 1 6048 501 Q E K Q K C G H G 1 6049 515 Q G V V D D E Q V 1 6050 520 D E Q V K T I S I 1 6051 523 V K T I S I N Q V 1 6052 527 S I N Q V L S N K 1 6053 531 V L S N K D L I N 1 6054 532 L S N K D L I N Y 1 6055 540 Y N K F V Q S C I 1 6056 541 N K F V Q S C I D 1 6057 542 K F V Q S C I D W 1 6058 543 F V Q S C I D W N 1 6059 544 V Q S C I D W N R 1 6060 549 D W N R E V L K R 1 6061 552 R E V L K R E L G 1 6062 557 R E L G L A E C D 1 6063 558 E L G L A E C D I 1 6064 563 E C D I I D I P Q 1 6065 572 L F K T E R K K A 1 6066 578 K K A T A F F P D 1 6067 587 L V N M L V L G K 1 6068 591 L V L G K H L G I 1 6069 592 V L G K H L G I P 1 6070 608 N G C C C L E E K 1 6071 609 G C C C L E E K V 1 6072 621 L E P L G L H C T 1 6073 625 G L H C T F I D D 1 6074 628 C T F I D D F T P 1 6075 634 F T P Y H M L H G 1 6076 635 T P Y H M L H G E 1 6077 636 P Y H M L H G E V 1 6078 642 G E V H C G T N V 1 6079 653 K P F S F K W W N 1 6080 655 F S F K W W N M V 1 6081 184P1E2 v.2: HLA Peptide Scoring Results B1510 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 3 M T P S T L A P L 10 6082 7 T L A P L E V Y V 6 6083 2 I M T P S T L A P 5 6084 4 T P S T L A P L E 3 6085 6 S T L A P L E V Y 3 6086 8 L A P L E V Y V C 3 6087 9 A P L E V Y V C R 3 6088 5 P S T L A P L E V 2 6089 1 W I M T P S T L A 1 6090 184P1E2 v.3: HLA Peptide Scoring Results B1510 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 9 V P D G K G F R M 9 6091 7 V P V P D G K G F 8 6092 2 E F L S F V P V P 5 6093 3 F L S F V P V P D 4 6094 4 L S F V P V P D G 4 6095 5 S F V P V P D G K 3 6096 8 P V P D G K G F R 3 6097 1 D E F L S F V P V 2 6098 6 F V P V P D G K G 2 6099

TABLE XXXI 184P1E2 v.1: HLA Peptide Scoring Results B2705 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 426 G R I L I G G N L 29 6100 59 G R E R A D T R R 28 6101 66 R R W R F D A T L 27 6102 439 G R R V T Q V V R 27 6103 240 P R L H G D E E R 26 6104 185 L R T Q G P A A L 25 6105 311 C R V R N N T C F 24 6106 371 P R N G E L Q D F 24 6107 396 P R D R S V S G L 23 6108 446 V R D F L H A Q K 23 6109 551 N R E V L K R E L 23 6110 576 E R K K A T A F F 23 6111 68 W R F D A T L E I 21 6112 226 Y R H V L G Q D K 21 6113 61 E R A D T R R W R 20 6114 248 R F F V E G L S F 20 6115 346 R W I Q D E M E L 20 6116 432 G N L P G S S G R 20 6117 186 R T Q G P A A L F 19 6118 259 A G F T C L I S F 19 6119 399 R S V S G L D S F 19 6120 440 R R V T Q V V R D 19 6121 618 R S L L E P L C L 19 6122 72 A T L F I I V V M 18 6123 148 G I L L V N C D R 18 6124 241 R L H G D E E R F 18 6125 260 G F T C L I S F H 18 6126 374 G E L Q D F P Y K 18 6127 383 R I L G P D F G Y 18 6128 441 R V T Q V V R D F 18 6129 495 A C F K L F Q E K 18 6130 556 K R E L G L A E C 18 6131 5 R I V R V S L E H 17 6132 31 G S V P E G T E M 17 6133 50 I Y I S P N M E R 17 6134 58 R G R E R A D T R 17 6135 62 R A D T R R W R F 17 6136 234 K V S Y F V P R L 17 6137 263 C L I S F H V T L 17 6138 382 K R I L C P D F G 17 6139 386 G P D F G Y V T R 17 6140 469 G H V D F F L S F 17 6141 524 K T I S I N Q V L 17 6142 527 S I N Q V L S N K 17 6143 535 K D L I N Y N K F 17 6144 564 C D I I D I P Q L 17 6145 571 Q L F K T E R K K 17 6146 582 A F F P D L V N M 17 6147 595 K H L C I P K P F 17 6148 191 A A L F D D H K L 16 6149 253 G L S F P D A G F 16 6150 321 D A V A E L A R K 16 6151 421 K E Y P L G R I L 16 6152 433 N L P G S S G R R 16 6153 453 Q K V Q P P V E L 16 6154 534 N K D L I N Y N K 16 6155 569 I P Q L F K T E R 16 6156 575 T E R K K A T A F 16 6157 622 E P L G L H C T F 16 6158 18 V C V A G V E T L 15 6159 48 V D I Y I S P N M 15 6160 127 G R Q D R N F V D 15 6161 128 R Q D R N F V D K 15 6162 142 G P S G Y G C I L 15 6163 209 K R A Q V F H I C 15 6164 277 E D F S A S P I F 15 6165 283 P I F T D T V V F 15 6166 304 P P L E V Y V C R 15 6167 328 R K A G C K L T I 15 6168 377 Q D F P Y K R I L 15 6169 402 S G L D S F G N L 15 6170 454 K V Q P P V E L F 15 6171 466 L A V G H V D E F 15 6172 491 A S P G A C F K L 15 6173 505 K C G H G R A L L 15 6174 509 G R A L L F Q G V 15 6175 516 G V V D D E Q V K 15 6176 544 V Q S C I D W N R 15 6177 549 D W N R E V L K R 15 6178 553 E V L K R E L G L 15 6179 566 I I D I P Q L F K 15 6180 570 P Q L F K T E R K 15 6181 4 Q R I V R V S L E 14 6182 44 G T P G V D I Y I 14 6183 111 Y L T C V D I S L 14 6184 115 V D I S L D C D L 14 6185 130 D R N F V D K R Q 14 6186 177 L E D M S V M V L 14 6187 198 K L V L H T S S Y 14 6188 202 H T S S Y D A K R 14 6189 206 Y D A K R A Q V F 14 6190 220 E D V C E A Y R H 14 6191 247 E R F F V E G L S 14 6192 256 F P D A G F T G L 14 6193 295 P W I M T P S T L 14 6194 301 S T L P P L F V Y 14 6195 318 C F V D A V A E L 14 6196 326 L A R K A G C K L 14 6197 335 T I C P Q A E N R 14 6198 354 L G Y V Q A P H K 14 6199 417 V A N G K F Y P L 14 6200 480 A P D C K G F R M 14 6201 481 P D C K G F R N L 14 6202 486 F R M L L A S P G 14 6203 490 L A S P C A C F K 14 6204 506 C G H C R A L L F 14 6205 529 N Q V L S N K D L 14 6206 532 L S N K D L I N Y 14 6207 585 P D L V N M L V L 14 6208 601 K P F G P I I N G 14 6209 605 P I I N G C C C L 14 6210 612 C L E E K V R S L 14 6211 613 L E E K V R S L L 14 6212 616 K V R S L L S P L 14 6213 632 D D F T P Y H M L 14 6214 644 V H C G T N V C R 14 6215 650 V C R K P F S F K 14 6216 651 C R K P F S F K W 14 6217 3 L Q R I V R V S L 13 6218 22 G V E T L V D I Y 13 6219 32 S V P E C T E M F 13 6220 79 V M N S P S N D L 13 6221 88 N D S H V Q I S Y 13 6222 102 P L P L A Y A V L 13 6223 123 L N C E G R Q D R 13 6224 125 C E G R Q D R N F 13 6225 129 Q D R N F V D K R 13 6226 136 K R Q W V W G P S 13 6227 143 P S G Y C C I L L 13 6228 166 N C D Q H V H C L 13 6229 172 H C L Q D L E D M 13 6230 175 Q D L E D M S V H 13 6231 193 L F D D H K L V L 13 6232 229 V L G Q D K V S Y 13 6233 264 L I S F H V T L L 13 6234 284 I F T D T V V F R 13 6235 291 F R V A P W I M T 13 6236 306 L E V Y V C R V R 13 6237 327 A R K A G C K L T 13 6238 360 P H K T L P V V F 13 6239 364 L P V V F D S P R 13 6240 368 F D S P R N C K L 13 6241 375 E L Q D F P Y K R 13 6242 393 T R E P R D R S V 13 6243 413 S P P V V A N C K 13 6244 420 G K E Y P L G R I 13 6245 467 A V C H V D E F L 13 6246 479 P A P D G K G F R 13 6247 482 D G K G F R M L L 13 6248 497 F K L F Q E K Q K 13 6249 565 D I I D I P Q L F 13 6250 579 K A T A F F P D L 13 6251 583 F F P D L V N M L 13 6252 587 L V N M L V L C K 13 6253 588 V N M L V L G K H 13 6254 589 N H L V L C K H L 13 6255 610 C C C L S S K V R 13 6256 617 V R S L L E P L G 13 6257 619 S L L E P L G L H 13 6258 626 L H C T F I D D F 13 6259 645 H C C T N V C R K 13 6260 647 G T N V C R K P F 13 6261 7 V R V S L E H P T 12 6262 43 Y G T P G V D I Y 12 6263 5 P N M E R G R E R 12 6264 57 E R C R E R A D T 12 6265 89 D S H V Q I S Y H 12 6266 92 V Q I S Y H S S H 12 6267 97 H S S H E P L P L 12 6268 103 L P L A Y A V L Y 12 6269 104 P L A Y A V L Y L 12 6270 138 Q W V W G P S G Y 12 6271 155 D R D D P S C D V 12 6272 169 Q H V H C L Q D L 12 6273 178 E D M S V N V L R 12 6274 189 G P A A L F D D H 12 6275 190 P A A L F D D H K 12 6276 218 G P E D V C E A Y 12 6277 227 R H V L G Q D K V 12 6278 233 D K V S Y E V P R 12 6279 235 V S Y F V P R L H 12 6280 271 L L D D S N E D F 12 6281 289 V V F R V A P W I 12 6282 298 M T P S T L P P L 12 6283 325 E L A R K A C C K 12 6284 338 P Q A H N R N D R 12 6285 342 N R N D R W I Q D 12 6286 344 N D R W I Q D F M 12 6287 353 E L C Y V Q A P H 12 6288 356 Y V Q A P H K T L 12 6289 381 Y K R I L G P D F 12 6290 389 F G Y V T R S P R 12 6291 398 D R S V S G L D S 12 6292 419 N G K E Y P L G R 12 6293 458 P V E L F V D W L 12 6294 476 S F V P A P D G K 12 6295 489 L L A S P G A C F 12 6296 502 E K Q K C G H G R 12 6297 504 Q K C G H G R A L 12 6298 548 I D W N R E V L K 12 6299 591 L V L G K H L G I 12 6300 593 L G K H L G I P K 12 6301 594 G K H L G I P K P 12 6302 598 C I P K P F G P I 12 6303 608 N G C C C L E E K 12 6304 629 T F I D D F T P Y 12 6305 649 N V C R K P F S F 12 6306 654 P F S F K W W N M 12 6307 21 A G V E T L V D I 11 6308 52 I S P N M E R G R 11 6309 69 R F D A T L E I I 11 6310 83 P S N D L N D S H 11 6311 95 S Y H S S H E P L 11 6312 99 S H E P L P L A Y 11 6313 120 D C D L N C E C R 11 6314 164 Q D N C D Q H V H 11 6315 194 F D D H K L V L H 11 6316 201 L H T S S Y D A K 11 6317 207 D A K R A Q V F H 11 6318 219 P E D V C E A Y R 11 6319 222 V C E A Y R H V L 11 6320 242 L H G D E E R F F 11 6321 246 E E R F F V E G L 11 6322 313 V R N N T C F V D 11 6323 320 V D A V A E L A R 11 6324 345 D R W I Q D E M E 11 6325 348 I Q D E M E L G Y 11 6326 391 Y V T R E P R D R 11 6327 442 V T Q V V R D F L 11 6328 447 R D F L H A Q K V 11 6329 462 F V D W L A V G H 11 6330 478 V P A P D G K G F 11 6331 498 K L F Q E K Q K C 11 6332 500 F Q E K Q K C G H 11 6333 547 C I D W N R E V L 11 6334 1 M S L Q R I V R V 10 6335 35 E G T E M F E V Y 10 6336 65 T R R W R F D A T 10 6337 109 V L Y L T C V D I 10 6338 144 S C Y G G I L L V 10 6339 292 R V A P W I M T P 10 6340 373 N C E L Q C F P Y 10 6341 387 P D F C Y V T R E 10 6342 415 P V V A N G K E Y 10 6343 422 E Y P L G R I L I 10 6344 443 T Q V V R D F L H 10 6345 492 S P G A C F K L F 10 6346 510 R A L L F Q C V V 10 6347 540 Y N K F V Q S C I 10 6348 557 R E L G L A E C D 10 6349 561 L A E C D I I D I 10 6350 631 I D D F T P Y H M 10 6351 633 D F T P Y H M L H 10 6352 637 Y H M L H C E V H 10 6353 86 D L N D S H V Q I 9 6354 131 R N F V D K R Q W 9 6355 145 G Y G G I L L V N 9 6356 147 G G I L L V N C D 9 6357 162 D V Q D N C D Q H 9 6358 231 G Q D K V S Y E V 9 6359 276 N E D F S A S P I 9 6360 290 V F R V A P W I M 9 6361 376 L Q D F P Y K R I 9 6362 408 C N L E V S P P V 9 6363 427 R I L I G G N L P 9 6364 428 T L I G G N L P G 9 6365 487 R M L L A S P C A 9 6366 512 L L F Q G V V D D 9 6367 518 V D D E Q V K T I 9 6368 520 D E Q V K T I S I 9 6369 530 Q V L S N K D L I 9 6370 559 L G L A E C D I I 9 6371 599 I P K P F C P I I 9 6372 623 P L G L H C T F I 9 6373 630 F I D D F T P Y H 9 6374 8 R V S L E H P T S 8 6375 28 D I Y C S V P E G 8 6376 42 V Y G T P G V D I 8 6377 141 W G P S G Y C C I 8 6378 208 A K R A Q V F H I 8 6379 257 P D A C F T G L I 8 6380 340 A E N R N D R W I 8 6381 355 G Y V Q A P H K T 8 6382 372 R N C E L Q D F P 8 6383 379 F P Y K R I L G P 8 6384 423 Y P L G K I L I C 8 6385 611 C C L E E K V R S 8 6386 642 C E V H C G T N V 8 6387 47 G V D I Y I S P N 7 6388 67 R W R F D A T L E 7 6389 71 D A T L E I I V V 7 6390 74 L E I I V V M N S 7 6391 117 I S L D C D L N C 7 6392 156 R D D P S C D V Q 7 6393 269 V T L L D D S N E 7 6394 331 G C K L T I C P Q 7 6395 334 L T I C P Q A E N 7 6396 343 R N D R W I Q D E 7 6397 362 K T L P V V F D S 7 6398 390 G Y V T R E P R D 7 6399 405 D S F G N L E V S 7 6400 431 G G N L P G S S G 7 6401 436 G S S G R R V T Q 7 6402 484 K G F R M L L A S 7 6403 485 G F R M L L A S P 7 6404 521 E Q V K T I S I N 7 6405 542 K F V Q S C I D W 7 6406 552 R E V L K R E L G 7 6407 558 E L G L A E C D I 7 6408 567 I D I P Q L F K T 7 6409 581 T A F F P D L V N 7 6410 653 K P F S F K W W N 7 6411 9 V S L E H P T S A 6 6412 24 E T L V D I Y G S 6 6413 27 V D I Y G S V P E 6 6414 38 E M F E V Y G T P 6 6415 60 R E R A D T R R W 6 6416 90 S H V Q I S Y H S 6 6417 94 I S Y H S S H E P 6 6418 101 E P L P L A Y A V 6 6419 124 N C E G R Q D R N 6 6420 133 F V D K R Q W V W 6 6421 137 R Q W V W G P S G 6 6422 197 H K L V L H T S S 6 6423 228 H V L G Q D K V S 6 6424 249 F F V E G L S F P 6 6425 265 I S F H V T L L D 6 6426 282 S P I F T D T V V 6 6427 322 A V A E L A R K A 6 6428 329 K A G C K L T I C 6 6429 336 I C P Q A E N R N 6 6430 359 A P H K T L P V V 6 6431 366 V V F D S P R N G 6 6432 394 R E P R D R S V S 6 6433 397 R D R S V S G L D 6 6434 412 V S P P V V A N G 6 6435 451 H A Q K V Q P P V 6 6436 472 D E F L S F V P A 6 6437 475 L S F V P A P D G 6 6438 494 G A C F K L F Q E 6 6439 503 K Q K C G H G R A 6 6440 517 V V D D E Q V K T 6 6441 519 D D E Q V K T I S 6 6442 523 V K T I S I N Q V 6 6443 526 I S I N Q V L S N 6 6444 528 I N Q V L S N K D 6 6445 538 I N Y N K F V Q S 6 6446 560 G L A E C D I I D 6 6447 57 K T E R K K A T A 6 6448 602 P F G P I I N G C 6 6449 609 G C C C L E E K V 6 6450 655 F S F K W W N M V 6 6451 19 C V A G V E T L V 5 6452 41 E V Y G T P G V D 5 6453 75 E I I V V M N S P 5 6454 77 I V V M N S P S N 5 6455 105 L A Y A V L Y L T 5 6456 107 Y A V L Y L T C V 5 6457 108 A V L Y L T C V D 5 6458 146 Y G G I L L V N C 5 6459 149 I L L V N C D R D 5 6460 159 P S C D V Q D N C 5 6461 174 L Q D L E D M S V 5 6462 195 D D H K L V L H T 5 6463 210 R A Q V F H I C G 5 6464 211 A Q V F H I C G P 5 6465 216 I C G P E D V C E 5 6466 244 G D E E R F F V E 5 6467 254 L S F P D A G F T 5 6468 270 T L L D D S N E D 5 6469 279 F S A S P I F T D 5 6470 303 L P P L E V Y V C 5 6471 307 E V Y V C R V R N 5 6472 314 R N N T C F V D A 5 6473 317 T C F V D A V A E 5 6474 324 A E L A R K A C C 5 6475 330 A G C K L T I C P 5 6476 332 C K L T I C P Q A 5 6477 351 E M E L C Y V Q A 5 6478 352 M E L G Y V Q A P 5 6479 365 P V V F D S P R N 5 6480 400 S V S G L D S F G 5 6481 404 L D S F G N L E V 5 6482 418 A N G K E Y P L G 5 6483 448 D F L H A Q K V Q 5 6484 459 V E L F V D W L A 5 6485 496 C F K L F Q E K Q 5 6486 507 G H G R A L L F Q 5 6487 511 A L L F Q G V V D 5 6488 522 Q V K T I S I N Q 5 6489 533 S N K D L I N Y N 5 6490 550 W N R E V L K R E 5 6491 562 A E C D I I D I P 5 6492 577 R K K A T A F F P 5 6493 590 M L V L G K H L G 5 6494 604 G P I I N G C C C 5 6495 615 E K V R S L L E P 5 6496 628 C T F I D D F T P 5 6497 638 H M L H G E V H C 5 6498 652 R K P F S F K W W 5 6499 11 L E H P T S A V C 4 6500 16 S A V C V A G V E 4 6501 23 V E T L V D I Y G 4 6502 36 G T E M F E V Y G 4 6503 40 F E V Y G T P G V 4 6504 45 T P G V D I Y I S 4 6505 46 P G V D I Y I S P 4 6506 49 D I Y I S P N M E 4 6507 55 N M E R G R E R A 4 6508 76 I I V V N N S P S 4 6509 78 V V M N S P S N D 4 6510 81 N S P S N D L N D 4 6511 85 N D L N D S H V Q 4 6512 98 S S H E P L P L A 4 6513 100 H E P L P L A Y A 4 6514 106 A Y A V L Y L T C 4 6515 112 L T C V D I S L D 4 6516 113 T C V D I S L D C 4 6517 121 C D L N C E G R Q 4 6518 135 D K R Q W V W G P 4 6519 139 W V W C P S G Y G 4 6520 161 C D V Q D N C D Q 4 6521 171 V H C L Q D L E D 4 6522 179 D M S V M V L R T 4 6523 180 M S V M V L R T Q 4 6524 181 S V M V L R T Q G 4 6525 183 M V L R T Q G P A 4 6526 192 A L F D D H K L V 4 6527 196 D H K L V L H T S 4 6528 199 L V L H T S S Y D 4 6529 212 Q V F H T C G P E 4 6530 214 F H I C G P E D V 4 6531 215 H I C G P E D V C 4 6532 224 E A Y R H V L G Q 4 6533 225 A Y R H V L G Q D 4 6534 250 F V E G L S F P D 4 6535 262 T G L I S F H V T 4 6536 268 H V T L L D D S N 4 6537 280 S A S P I F T D T 4 6538 285 F T D T V V F R V 4 6539 296 W I M T P S T L P 4 6540 297 I M T P S T L P P 4 6541 300 P S T L P P L E V 4 6542 308 V Y V C R V R N N 4 6543 309 Y V C R V R N N T 4 6544 312 R V R N N T C F V 4 6545 316 N T C F V D A V A 4 6546 337 C P Q A E N R N D 4 6547 350 D E M E L G Y V Q 4 6548 357 V Q A P H K T L P 4 6549 361 H K T L P V V F D 4 6550 370 S P R N G E L Q D 4 6551 392 V T R E P R D R S 4 6552 403 G L D S F G N L E 4 6553 407 F G N L E V S P P 4 6554 410 L E V S P P V V A 4 6555 411 E V S P P V V A N 4 6556 414 P P V V A N G K E 4 6557 425 L G R I L I G G N 4 6558 429 L I G G N L P G S 4 6559 437 S S G R R V T Q V 4 6560 450 L H A Q K V Q P P 4 6561 457 P P V E L F V D W 4 6562 460 E L F V D W L A V 4 6563 461 L F V D W L A V G 4 6564 464 D W L A V G H V D 4 6565 473 E F L S F V P A P 4 6566 477 F V P A P D G K G 4 6567 483 G K G F R M L L A 4 6568 499 L F Q E K Q K C G 4 6569 513 L F Q C V V D D E 4 6570 539 N Y N K F V Q S C 4 6571 541 N K F V Q S C I D 4 6572 546 S C I D W N R E V 4 6573 568 D I P Q L F K T E 4 6574 584 F P D L V N M L V 4 6575 597 L G I P K P F G P 4 6576 621 L E P L G L H C T 4 6577 625 G L H C T F I D D 4 6578 639 M L H G E V H C G 4 6579 643 E V H C G T N V C 4 6580 2 S L Q R I V R V S 3 6581 6 I V R V S L E H P 3 6582 12 E H P T S A V C V 3 6583 17 A V C V A G V E T 3 6584 20 V A G V E T L V D 3 6585 25 T L V D I Y G S V 3 6586 33 V P E G T E M F E 3 6587 37 T E M F E V Y G T 3 6588 51 Y I S P N M E R G 3 6589 53 S P N M E R G R E 3 6590 73 T L E I I V V M N 3 6591 80 M N S P S N D L N 3 6592 84 S N D L N D S H V 3 6593 110 L Y L T C V D I S 3 6594 119 L D C D L N C E G 3 6595 126 E G R Q D R N F V 3 6596 140 V W G P S G Y G G 3 6597 153 N C D R D D P S C 3 6598 157 D D P S C D V Q D 3 6599 170 H V H C L Q D L E 3 6600 187 T Q G P A A L F D 3 6601 200 V L H T S S Y D A 3 6602 203 T S S Y D A K R A 3 6603 204 S S Y D A K R A Q 3 6604 205 S Y D A K R A Q V 3 6605 217 C G P E D V C E A 3 6606 230 L G Q D K V S Y E 3 6607 237 Y E V P R L H G D 3 6608 251 V E G L S F P D A 3 6609 261 F T G L I S F H V 3 6610 267 F H V T L L D D S 3 6611 273 D D S N S D F S A 3 6612 275 S N E D F S A S P 3 6613 288 T V V F R V A P W 3 6614 293 V A P W I M T P S 3 6615 294 A P W I H T P S T 3 6616 302 T L P P L E V Y V 3 6617 305 P L E V Y V C R V 3 6618 310 V C R V R N N T C 3 6619 339 Q A E N R N D R W 3 6620 395 E P R D R S V S G 3 6621 406 S F G N L E V S P 3 6622 409 N L E V S P P V V 3 6623 416 V V A N G K E Y P 3 6624 424 P L G R I L I G G 3 6625 430 I G G N L P G S S 3 6626 434 L P G S S G R R V 3 6627 435 P G S S G R R V T 3 6628 449 F L H A Q K V Q P 3 6629 452 A Q K V Q P P V E 3 6630 455 V Q P P V E L F V 3 6631 456 Q P P V E L F V D 3 6632 465 W L A V G H V D E 3 6633 470 H V D E F L S F V 3 6634 471 V D E F L S F V P 3 6635 488 M L L A S P G A C 3 6636 501 Q E K Q K C G H G 3 6637 508 H G R A L L F Q G 3 6638 514 F Q G V V D D E Q 3 6639 515 Q G V V D D E Q V 3 6640 525 T I S I N Q V L S 3 6641 531 V L S N K D L I N 3 6642 536 D L I N Y N K F V 3 6643 543 F V Q S C I D W N 3 6644 545 Q S C I D W N R E 3 6645 555 L K R E L G L A E 3 6646 563 E C D I I D I P Q 3 6647 572 L F K T E R K K A 3 6648 586 D L V N M L V L G 3 6649 592 V L G K H L G I P 3 6650 596 H L G I P K P F G 3 6651 600 P K P F G P I I N 3 6652 606 I I N G C C C L E 3 6653 607 I N G C C C L E E 3 6654 620 L L E P L G L H C 3 6655 635 T P Y H M L H G E 3 6656 646 C G T N V C R K P 3 6657 648 T N V C R K P F S 3 6658 656 S F K W W N M V P 3 6659 10 S L E H P T S A V 2 6660 13 H P T S A V C V A 2 6661 14 P T S A V C V A G 2 6662 15 T S A V C V A G V 2 6663 26 L V D I Y C S V P 2 6664 29 I Y G S V P E G T 2 6665 30 Y G S V P E C T E 2 6666 34 P E G T E M F E V 2 6667 39 M F E V Y C T P G 2 6668 56 M E R G R E R A D 2 6669 70 F D A T L E I I V 2 6670 82 S P S N D L N D S 2 6671 91 H V Q I S Y H S S 2 6672 93 Q I S Y H S S H E 2 6673 114 C V D I S L D C D 2 6674 118 S L D C D L N C E 2 6675 122 D L N C E G R Q D 2 6676 132 N F V D K R Q W V 2 6677 150 L L V N C D R D D 2 6678 160 S C D V Q D N C D 2 6679 168 D Q H V H C L Q D 2 6680 176 D L E D M S V M V 2 6681 182 V M V L R T Q G P 2 6682 213 V F H I C G P E D 2 6683 232 Q D K V S Y E v P 2 6684 236 S Y E V P R L H G 2 6685 239 V P R L H G D E E 2 6686 243 H G D E F R F F V 2 6687 245 D E E R F F V E G 2 6688 252 E G L S F P D A G 2 6689 266 S F H V T L L D D 2 6690 274 D S N F D F S A S 2 6691 278 D F S A S P I F T 2 6692 281 A S P I F T D T V 2 6693 286 T D T V V F R V A 2 6694 287 D T V V F R V A P 2 6695 299 T P S T L P P L E 2 6696 319 F V D A V A E L A 2 6697 333 K L T I C P Q A E 2 6698 349 Q D F M E L G Y V 2 6699 358 Q A P H K T L P V 2 6700 363 T L P V V F D S P 2 6701 367 V F D S P R N C E 2 6702 378 D F P Y K R I L G 2 6703 380 P Y K R I L C P D 2 6704 384 I L G P D F G Y V 2 6705 385 L G P D F G Y V T 2 6706 388 D F C Y V T R E P 2 6707 401 V S G L D S F C N 2 6708 438 S G R R V T Q V V 2 6709 444 Q V V R D F L H A 2 6710 463 V D W L A V G H V 2 6711 474 F L S F V P A P D 2 6712 493 P G A C F K L F Q 2 6713 537 L I N Y N K F V Q 2 6714 554 V L K R E L G L A 2 6715 573 F K T E R K K A T 2 6716 578 K K A T A F F P D 2 6717 603 F G P I I N G C C 2 6718 614 E E K V R S L L E 2 6719 624 L G L H C T F I D 2 6720 627 H C T F I D D F T 2 6721 636 P Y H M L H G E V 2 6722 640 L H G E V H C G T 2 6723 63 A D T R R W R F D 1 6724 87 L N D S H V Q I S 1 6725 96 Y H S S H E P L P 1 6726 116 D I S L D C D L N 1 6727 134 V D K R Q W V W G 1 6728 152 V N C D R D D P S 1 6729 154 C D R D D P S C D 1 6730 158 D P S C D V Q D N 1 6731 163 V Q D N C D Q H V 1 6732 165 D N C D Q H V H C 1 6733 167 C D Q H V H C L Q 1 6734 173 C L Q D L E D M S 1 6735 184 V L R T Q G P A A 1 6736 188 Q G P A A L F D D 1 6737 221 D V C E A Y R H V 1 6738 223 C E A Y R H V L G 1 6739 238 E V P R L H G D E 1 6740 255 S F P D A G F T G 1 6741 258 D A G F T G L I S 1 6742 315 N N T C F V D A V 1 6743 323 V A E L A R K A G 1 6744 341 E N R N D R W I Q 1 6745 347 W I Q D E M E L G 1 6746 445 V V R D F L H A Q 1 6747 580 A T A F F P D L V 1 6748 634 F T P Y H N L H G 1 6749 641 H G E V H C C T N 1 6750 184P1E2 v.2: HLA Peptide Scoring Results B2705 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 9 A P L E V Y V C R 16 6751 6 S T L A P L E V Y 13 6752 3 M T P S T L A P L 12 6753 8 L A P L E V Y V C 5 6754 1 W I M T P S T L A 4 6755 2 I M T P S T L A P 4 6756 4 T P S T L A P L E 3 6757 5 P S T L A P L E V 3 6758 7 T L A P L E V Y V 3 6759 184P1E2 v.3: HLA Peptide Scoring Results B2705 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 5 S F V P V P D G K 13 6760 8 P V P D G K G F R 13 6761 9 V P D G K G F R M 13 6762 7 V P V P D G K G F 12 6763 1 D E F L S F V P V 6 6764 4 L S F V P V P D G 6 6765 2 E F L S F V P V P 5 6766 6 F V P V P D G K G 4 6767 3 F L S F V P V P D 2 6768

TABLE XXXII 184P1E2 v.1: HLA Peptide Scoring Results B2709 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 426 G R I L I G G N L 26 6769 66 R R W R F D A T L 24 6770 68 W R F D A T L E I 21 6771 185 L R T Q G P A A L 21 6772 396 P R D R S V S G L 21 6773 509 G R A L L F Q G V 21 6774 551 N R E V L K R E L 20 6775 311 C R V R N N T C F 19 6776 393 T R E P R D R S V 19 6777 155 D R D D P S C D V 18 6778 371 P R N G E L Q D F 18 6779 440 R R V T Q V V R D 18 6780 576 E R K K A T A F F 18 6781 618 R S L L E P L G L 17 6782 263 G L I S F H V T L 16 6783 346 R W I Q D E M E L 16 6784 234 K V S Y E V P R L 15 6785 248 R F F V E G L S F 15 6786 421 K E Y P L G R I L 15 6787 447 R D F L H A Q K V 15 6788 524 K T I S I N Q V L 15 6789 582 A F F P D L V N M 15 6790 59 G R E R A D T R R 14 6791 191 A A L F D D H K L 14 6792 241 R L H G D E E R F 14 6793 399 R S V S G L D S F 14 6794 408 G N L E V S P P V 14 6795 439 G R R V T Q V V R 14 6796 441 R V T Q V V R D F 14 6797 510 R A L L F Q G V V 14 6798 564 C D I I D I P Q L 14 6799 579 K A T A F F P D L 14 6800 31 G S V P E G T E M 13 6801 62 R A D T R R W R F 13 6802 72 A T L E I I V V M 13 6803 101 E P L P L A Y A V 13 6804 127 G R Q D R N F V D 13 6805 142 G P S G Y G G I L 13 6806 186 R T Q G P A A L F 13 6807 227 R H V L G Q D K V 13 6808 328 R K A G C K L T I 13 6809 377 Q D F P Y K R I L 13 6810 382 K R I L G P D F G 13 6811 402 S G L D S F C N L 13 6812 469 G H V D E F L S F 13 6813 553 E V L K R E L G L 13 6814 585 P D L V N M L V L 13 6815 595 K H L C I P K P F 13 6816 616 K V R S L L E P L 13 6817 642 G H V H C G T N V 13 6818 1 M S L Q R I V R V 12 6819 4 Q R I V R V S L E 12 6820 7 V R V S L H H P T 12 6821 18 V C V A G V E T L 12 6822 48 V D I Y I S P N N 12 6823 69 R F D A T L H I I 12 6824 104 P L A Y A V L Y L 12 6825 115 V D I S L D C D L 12 6826 136 K R Q W V W G P S 12 6827 192 A L F D D H K L V 12 6828 209 K R A Q V F H I C 12 6829 231 G Q D K V S Y E V 12 6830 240 P R L H G D E H R 12 6831 247 E R F F V H C L S 12 6832 277 H D F S A S P I F 12 6833 283 P I F T D T V V F 12 6834 289 V V F R V A P W I 12 6835 298 M T P S T L P P L 12 6836 312 R V R N N T C F V 12 6837 318 C F V D A V A E L 12 6838 426 G K E Y P L G R I 12 6839 453 Q K V Q P P V E L 12 6840 454 K V Q P P V E L F 12 6841 460 E L F V D W L A V 12 6842 505 K C G H G R A L L 12 6843 535 K D L I N Y N K F 12 6844 556 K R E L G L A E C 12 6845 589 N M L V L G K H L 12 6846 632 D D F T P Y H M L 12 6847 3 L Q R I V R V S L 11 6848 21 A G V E T L V D I 11 6849 44 G T P G V D I Y I 11 6850 79 V M N S P S N D L 11 6851 95 S Y H S S H E P L 11 6852 97 H S S H E P L P L 11 6853 109 V L Y L T C V D I 11 6854 111 Y L T C V D I S L 11 6855 130 D R N F V D K R Q 11 6856 144 S C Y C C I L L V 11 6857 166 N C D Q H V H C L 11 6858 169 Q H V H C L Q D L 11 6859 172 H C L Q D L E D M 11 6860 175 Q D L E D M S V M 11 6861 177 L E D M S V M V L 11 6862 193 L F D D H K L V L 11 6863 246 E E R F F V E G L 11 6864 253 C L S F P D A G F 11 6865 259 A G F T G L I S F 11 6866 264 L I S F H V T L L 11 6867 291 F R V A P W I M T 11 6868 295 P W I M T P S T L 11 6869 327 A R K A G C K L T 11 6870 342 N R N D R W I Q D 11 6871 368 F D S P R N C E L 11 6872 384 I L G P D F G Y V 11 6873 398 D R S V S C L D S 11 6874 417 V A N C K E Y P L 11 6875 446 V R D F L H A Q K 11 6876 458 P V E L F V D W L 11 6877 467 A V C H V D E F L 11 6878 486 F R M L L A S P G 11 6879 491 A S P G A C F K L 11 6880 515 Q G V V D D E Q V 11 6881 529 N Q V L S N K D L 11 6882 530 Q V L S N K D L I 11 6883 583 F F P D L V N M L 11 6884 591 L V L G K H L G I 11 6885 598 G I P K P F G P I 11 6886 599 I P K P F G P I I 11 6887 605 P I I N G C C C L 11 6888 609 G C C C L E E K V 11 6889 612 C L E E K V R S L 11 6890 617 V R S L L E P L G 11 6891 647 G T N V C R K P F 11 6892 651 C R K P F S F K W 11 6893 12 E H P T S A V C V 10 6894 25 T L V D I Y G S V 10 6895 40 F E V Y G T P G V 10 6896 57 E R G R E R A D T 10 6897 61 E R A D T R R W R 10 6898 65 T R R W R F D A T 10 6899 86 D L N D S H V Q I 10 6900 102 P L P L A Y A V L 10 6901 143 P S G Y G G I L L 10 6902 208 A K R A Q V F H I 10 6903 222 V C E A Y R H V L 10 6904 226 Y R H V L G Q D K 10 6905 256 F P D A G F T G L 10 6906 285 F T D T V V F R V 10 6907 300 P S T L P P L E V 10 6908 302 T L P P L E V Y V 10 6909 305 P L E V Y V C R V 10 6910 313 V R N N T C F V D 10 6911 315 N N T C F V D A V 10 6912 326 L A R K A G C K L 10 6913 345 D R W I Q D E M H 10 6914 356 Y V Q A P H K T L 10 6915 359 A P H K T L P V V 10 6916 434 L P C S S G R R V 10 6917 437 S S C R R V T Q V 10 6918 442 V T Q V V R D F L 10 6919 455 V Q P P V F L F V 10 6920 466 L A V C H V D E F 10 6921 478 V P A P D G K G F 10 6922 480 A P D G K G F R M 10 6923 481 P D C K G F R M L 10 6924 482 D C K G F R M L L 10 6925 504 Q K C G H G R A L 10 6926 506 C G H G R A L L F 10 6927 523 V K T I S I N Q V 10 6928 547 C I D W N R E V L 10 6929 559 L G L A E C D I I 10 6930 565 D I I D I P Q L F 10 6931 613 L E E K V R S L L 10 6932 622 E P L G L H C T F 10 6933 631 I D D F T P Y H M 10 6934 655 F S F K W W N M V 10 6935 15 T S A V C V A G V 9 6936 42 V Y G T P G V D I 9 6937 71 D A T L E I I V V 9 6938 107 Y A V L Y L T C V 9 6939 125 C E G R Q D R N F 9 6940 126 E G R Q D R N F V 9 6941 132 N F V D K R Q W V 9 6942 141 W G P S G Y C G I 9 6943 176 D L S D M S V M V 9 6944 205 S Y D A K R A Q V 9 6945 206 Y D A K R A Q V F 9 6946 214 F H I C G P F D V 9 6947 261 F T C L I S F H V 9 6948 276 N E D F S A S P I 9 6949 281 A S P I F T D T V 9 6950 282 S P I F T D T V V 9 6951 340 A E N R N D R W I 9 6952 344 N D R W I Q D E M 9 6953 358 Q A P H K T L P V 9 6954 360 P H K T L P V V F 9 6955 376 L Q D F P Y K R I 9 6956 381 Y K R I L G P D F 9 6957 404 L D S F G N L E V 9 6958 409 N L E V S P P V V 9 6959 451 H A Q K V Q P P V 9 6960 463 V D W L A V G H V 9 6961 489 L L A S P G A C F 9 6962 518 V D D B Q V K T I 9 6963 536 D L I N Y N K F V 9 6964 546 S C I D W N R E V 9 6965 561 L A E C D I I D I 9 6966 575 T B R K K A T A F 9 6967 580 A T A F F P D L V 9 6968 654 P F S F K W W N M 9 6969 10 S L B H P T S A V 8 6970 19 C V A G V E T L V 8 6971 32 S V P E G T E M F 8 6972 34 P E G T E M F E V 8 6973 70 F D A T L E I I V 8 6974 84 S N D L N D S H V 8 6975 131 R N F V D K R Q W 8 6976 163 V Q D N C D Q H V 8 6977 174 L Q D L E D M S V 8 6978 221 D V C E A Y R H V 8 6979 242 L H G D E E R F F 8 6980 243 H C D F E R F F V 8 6981 257 P D A G F T G L I 8 6982 271 L L D D S N E D F 8 6983 290 V F R V A P W I M 8 6984 349 Q D E M E L G Y V 8 6985 422 E Y P L G R I L I 8 6986 438 S G R R V T Q V V 8 6987 470 H V D E F L S F V 8 6988 492 S P G A C F K L F 8 6989 520 D B Q V K T I S I 8 6990 540 Y N K F V Q S C I 8 6991 558 E L G L A E C D I 8 6992 584 F P D L V N M L V 8 6993 623 P L G L H C T F I 8 6994 626 L H C T F I D D F 8 6995 636 P Y H M L H G E V 8 6996 649 N V C R K P F S F 8 6997 374 G E L Q D F P Y K 7 6998 487 R M L L A S P G A 7 6999 557 R E L G L A E C D 7 7000 5 R I V R V S L E H 6 7001 60 R E R A D T R R W 6 7002 67 R W R F D A T L E 6 7003 362 K T L P V V F D S 6 7004 383 R I L G P D F G Y 6 7005 390 C Y V T R E P R D 6 7006 427 R I L I G G N L P 6 7007 432 G N L P G S S G R 6 7008 8 R V S L E H P T S 5 7009 58 R G R B R A D T R 5 7010 117 I S L D C D L N C 5 7011 128 R Q D R N F V D K 5 7012 137 R Q W V W G P S G 5 7013 145 C Y G G I L L V N 5 7014 147 G G I L L V N C D 5 7015 148 G I L L V N C D R 5 7016 156 R D D P S C D V Q 5 7017 254 L S F P D A G F T 5 7018 292 R V A P W I M T P 5 7019 314 R N N T C F V D A 5 7020 317 T C F V D A V A F 5 7021 332 C K L T I C P Q A 5 7022 394 R F P R D R S V S 5 7023 397 R D R S V S G L D 5 7024 473 F F L S F V P A P 5 7025 48 K G F R M L L A S 5 7026 516 G V V D D F Q V K 5 7027 538 I N Y N K F V Q S 5 7028 552 R E V L K R E L G 5 7029 577 R K K A T A F F P 5 7030 601 K P F C P I I N C 5 7031 653 K P F S F K W W N 5 7032 22 G V E T L V D I Y 4 7033 24 E T L V D I Y G S 4 7034 28 D I Y G S V P E G 4 7035 36 G T E M F E V Y G 4 7036 103 L P L A Y A V L Y 4 7037 149 I L L V N C D R D 4 7038 210 R A Q V F H I C G 4 7039 220 E D V C E A Y R H 4 7040 224 E A Y R H V L G Q 4 7041 260 C F T C L I S F H 4 7042 265 I S F H V T L L D 4 7043 269 V T L L D D S N E 4 7044 284 I F T D T V V F R 4 7045 297 I N T P S T L P P 4 7046 307 E V Y V C R V R N 4 7047 343 R N D R W I Q D E 4 7048 354 L C Y V Q A P H K 4 7049 355 G Y V Q A P H K T 4 7050 365 P V V F D S P R N 4 7051 372 R N G E L Q D F P 4 7052 386 G P D F C Y V T R 4 7053 387 P D F G Y V T R F 4 7054 403 C L D S F C N L E 4 7055 436 C S S G R R V T Q 4 7056 475 L S F V P A P D G 4 7057 483 G K G F R M L L A 4 7058 494 G A C F K L F Q E 4 7059 498 K L F Q F K Q K C 4 7060 507 G H C R A L L F Q 4 7061 511 A L L F Q C V V D 4 7062 512 L L F Q G V V D D 4 7063 526 I S I N Q V L S N 4 7064 594 G K H L C I P K P 4 7065 604 G P I I N G C C C 4 7066 611 C C L F E K V R S 4 7067 652 R K P F S F K W W 4 7068 13 H P T S A V C V A 3 7069 43 Y G T P G V D I Y 3 7070 47 G V D I Y I S P N 3 7071 50 I Y I S P N M F R 3 7072 73 T L E I I V V M N 3 7073 74 L E I I V V M N S 3 7074 77 I V V M N S P S N 3 7075 81 N S P S N D L N D 3 7076 85 N D L N D S H V Q 3 7077 90 S H V Q I S Y H S 3 7078 94 I S Y H S S H E P 3 7079 105 L A Y A V L Y L T 3 7080 108 A V L Y L T C V D 3 7081 110 L Y L T C V D I S 3 7082 113 T C V D I S L D C 3 7083 121 C D L N C E G R Q 3 7084 157 D D P S C D V Q D 3 7085 179 D M S V M V L R T 3 7086 187 T Q G P A A L F D 3 7087 189 G P A A L F D D H 3 7088 198 K L V L H T S S Y 3 7089 203 T S S Y D A K R A 3 7090 212 Q V F H I C G P E 3 7091 216 I C C P F D V C F 3 7092 218 G P F D V C E A Y 3 7093 233 D K V S Y F V P R 3 7094 244 C D E E R F F V E 3 7095 252 F C L S F P D A C 3 7096 270 T L L D D S N E D 3 7097 301 S T L P P L E V Y 3 7098 304 P P L E V Y V C R 3 7099 308 V Y V C R V R N N 3 7100 324 A E L A R K A G C 3 7101 331 G C K L T I C P Q 3 7102 333 K L T I C P Q A F 3 7103 335 T I C P Q A F N R 3 7104 352 M F L G Y V Q A P 3 7105 361 H K T L P V V F D 3 7106 366 V V F D S P R N C 3 7107 379 F P Y K R I L G P 3 7108 410 L F V S P P V V A 3 7109 411 F V S P P V V A N 3 7110 412 V S P P V V A N G 3 7111 423 Y P L G R I L I G 3 7112 428 I L I G G N L P G 3 7113 431 G G N L P G S S G 3 7114 444 Q V V R D F L H A 3 7115 472 D E F L S F V P A 3 7116 485 G F R M L L A S P 3 7117 495 A C F K L F Q E K 3 7118 497 F K L F Q E K Q K 3 7119 503 K Q K C G H G R A 3 7120 534 N K D L I N Y N K 3 7121 542 K F V Q S C I D W 3 7122 560 G L A E C D I I D 3 7123 567 I D I P Q L F K T 3 7124 570 P Q L F K T E R K 3 7125 581 T A F F P D L V N 3 7126 625 G L H C T F I D D 3 7127 628 C T F I D D F T P 3 7128 638 H M L H G E V H C 3 7129 2 S L Q R I V R V S 2 7130 9 V S L E H P T S A 2 7131 16 S A V C V A G V E 2 7132 17 A V C V A G V E T 2 7133 27 V D I Y G S V P E 2 7134 29 I Y G S V P E G T 2 7135 37 T E M F E V Y G T 2 7136 38 E M F E V Y G T P 2 7137 41 E V Y G T P G V D 2 7138 45 T P G V D I Y I S 2 7139 46 P G V D I Y I S P 2 7140 49 D I Y I S P N M E 2 7141 51 Y I S P N N E R G 2 7142 63 A D T R R W R F D 2 7143 76 I I V V N N S P S 2 7144 87 L N D S H V Q I S 2 7145 92 V Q I S Y H S S H 2 7146 96 Y H S S H E P L P 2 7147 99 S H S P L P L A Y 2 7148 106 A Y A V L Y L T C 2 7149 140 V W G P S C Y G C 2 7150 146 Y G G I L L V N C 2 7151 153 N C D R D D P S C 2 7152 158 D P S C D V Q D N 2 7153 161 C D V Q D N C D Q 2 7154 168 D Q H V H C L Q D 2 7155 178 E D M S V M V L R 2 7156 183 M V L R T Q G P A 2 7157 195 D D H K L V L H T 2 7158 197 H K L V L H T S S 2 7159 199 L V L H T S S Y D 2 7160 201 L H T S S Y D A K 2 7161 204 S S Y D A K R A Q 2 7162 211 A Q V F H I C G P 2 7163 217 C G P E D V C E A 2 7164 225 A Y R H V L G Q D 2 7165 228 H V L G Q D K V S 2 7166 229 V L G Q D K V S Y 2 7167 235 V S Y E V P R L H 2 7168 237 Y E V P R L H G D 2 7169 262 T G L I S F H V T 2 7170 280 S A S P I F T D T 2 7171 287 D T V V F R V A P 2 7172 288 T V V F R V A P W 2 7173 294 A P W I M T P S T 2 7174 303 L P P L E V Y V C 2 7175 321 D A V A E L A R K 2 7176 322 A V A E L A R K A 2 7177 329 K A G C K L T I C 2 7178 336 I C P Q A E N R N 2 7179 348 I Q D E M E L G Y 2 7180 351 E M E L G Y V Q A 2 7181 370 S P R N G E L Q D 2 7182 389 F G Y V T R E P R 2 7183 405 D S F G N L E V S 2 7184 418 A N G K S Y P L G 2 7185 448 D F L H A Q K V Q 2 7186 449 F L H A Q K V Q P 2 7187 452 A Q K V Q P P V E 2 7188 457 P P V S L F V D W 2 7189 459 V E L F V D W L A 2 7190 462 F V D W L A V G H 2 7191 464 D W L A V G H V D 2 7192 476 S F V P A P D G K 2 7193 488 M L L A S P G A C 2 7194 490 L A S P G A C F K 2 7195 522 Q V K T I S I N Q 2 7196 532 L S N K D L I N Y 2 7197 541 N K F V Q S C I D 2 7198 544 V Q S C I D W N R 2 7199 545 Q S C I D V W R F 2 7200 548 I D W N R E V L K 2 7201 549 D W N R E V L K R 2 7202 562 A E C D I I D I P 2 7203 566 I I D I P Q L F K 2 7204 571 Q L F K T E R K K 2 7205 574 K T E R K K A T A 2 7206 578 K K A T A F F P D 2 7207 586 D L V N M L V L G 2 7208 587 L V N M L V L G K 2 7209 597 L G I P K P F G P 2 7210 602 P F G P I I N G C 2 7211 607 I N G C C C L E E 2 7212 615 E K V R S L L E P 2 7213 619 S L L E P L G L H 2 7214 620 L L E P L G L H C 2 7215 624 L G L H C T F I D 2 7216 627 H C T F I D D F T 2 7217 629 T F I D D F T P Y 2 7218 633 D F T P Y H M L H 2 7219 635 T P Y H M L H G E 2 7220 645 H C G T N V C R K 2 7221 648 T N V C R K P F S 2 7222 6 I V R V S L E H P 1 7223 11 L E H P T S A V C 1 7224 14 P T S A V C V A G 1 7225 20 V A G V E T L V D 1 7226 23 V E T L V D I Y G 1 7227 35 E C T E M F E V Y 1 7228 52 I S P N M E R G R 1 7229 53 S P N M E R G R E 1 7230 55 N M E R G R E R A 1 7231 75 E I I V V M N S P 1 7232 78 V V M N S P S N D 1 7233 80 M N S P S N D L N 1 7234 82 S P S N D L N D S 1 7235 98 S S H E P L P L A 1 7236 112 L T C V D I S L D 1 7237 116 D I S L D C D L N 1 7238 118 S L D C D L N C E 1 7239 122 D L N C E C R Q D 1 7240 124 N C E G R Q D R N 1 7241 129 Q D R N F V D K R 1 7242 134 V D K R Q W V W G 1 7243 135 D K R Q W V W G P 1 7244 138 Q W V W G P S G Y 1 7245 150 L L V N C D R D D 1 7246 151 L V N C D R D D P 1 7247 154 C D R D D P S C D 1 7248 159 P S C D V Q D N C 1 7249 162 D V Q D N C D Q H 1 7250 164 Q D N C D Q H V H 1 7251 165 D N C D Q H V H C 1 7252 171 V H C L Q D L E D 1 7253 180 M S V M V L R T Q 1 7254 181 S V M V L R T Q G 1 7255 182 V M V L R T Q G P 1 7256 184 V L R T Q G P A A 1 7257 194 F D D H K L V L H 1 7258 200 V L H T S S Y D A 1 7259 202 H T S S Y D A K R 1 7260 207 D A K R A Q V F H 1 7261 213 V F H I C C P 5 D 1 7262 223 C E A Y R H V L G 1 7263 230 L G Q D K V S Y E 1 7264 236 S Y E V P R L H G 1 7265 245 D E E R F F V E G 1 7266 249 F F V E G L S F P 1 7267 251 V E G L S F P D A 1 7268 258 D A G F T G L I S 1 7269 266 S F H V T L L D D 1 7270 267 F H V T L L D D S 1 7271 268 H V T L L D D S N 1 7272 272 L D D S N E D F S 1 7273 274 D S N E D F S A S 1 7274 279 F S A S P I F T D 1 7275 286 T D T V V F R V A 1 7276 293 V A P W I M T P S 1 7277 299 T P S T L P P L E 1 7278 306 L E V Y V C R V R 1 7279 309 Y V C R V R N N T 1 7280 319 F V D A V A E L A 1 7281 320 V D A V A E L A R 1 7282 325 E L A R K A G C K 1 7283 330 A G C K L T I C P 1 7284 334 L T I C P Q A E N 1 7285 337 C P Q A E N R N D 1 7286 339 Q A E N R N D R W 1 7287 341 E N R N D R W I Q 1 7288 350 D E M E L G Y V Q 1 7289 357 V Q A P H K T L P 1 7290 364 L P V V F D S P R 1 7291 367 V F D S P R N G E 1 7292 375 E L Q D F P Y K R 1 7293 380 P Y K R I L C P D 1 7294 385 L G P D F G Y V T 1 7295 391 Y V T R E P R D R 1 7296 392 V T R E P R D R S 1 7297 395 E P R D R S V S G 1 7298 401 V S G L D S F G N 1 7299 406 S F G N L E V S P 1 7300 407 F G N L E V S P P 1 7301 413 S P P V V A N G K 1 7302 414 P P V V A N G K E 1 7303 415 P V V A N G K E Y 1 7304 419 N G K E Y P L G R 1 7305 424 P L G R I L I G G 1 7306 429 L I G G N L P G S 1 7307 430 I G G N L P G S S 1 7308 433 N L P G S S G R R 1 7309 435 P G S S G R R V T 1 7310 443 T Q V V R D F L H 1 7311 450 L H A Q K V Q P P 1 7312 461 L F V D W L A V G 1 7313 465 W L A V G H V D E 1 7314 468 V G H V D E F L S 1 7315 493 P G A C F K L F Q 1 7316 508 H G R A L L F Q G 1 7317 513 L F Q G V V D D E 1 7318 517 V V D D E Q V K T 1 7319 521 E Q V K T I S I N 1 7320 525 T I S I N Q V L S 1 7321 527 S I N Q V L S N K 1 7322 528 I N Q V L S N K D 1 7323 531 V L S N K D L I N 1 7324 539 N Y N K F V Q S C 1 7325 543 F V Q S C I D W N 1 7326 550 W N R E V L K R E 1 7327 555 L K R E L G L A E 1 7328 563 E C D I I D I P Q 1 7329 569 I P Q L F K T E R 1 7330 573 F K T E R K K A T 1 7331 590 M L V L G K H L G 1 7332 596 H L G I P K P F G 1 7333 603 F G P I I N G C C 1 7334 606 I I N G C C C L E 1 7335 614 E E K V R S L L E 1 7336 630 F I D D F T P Y H 1 7337 634 F T P Y H M L H G 1 7338 639 M L H G E V H C G 1 7339 644 V H C G T N V C R 1 7340 646 C G T N V C R K P 1 7341 184P1E2 v.2: HLA Peptide Scoring Results B2709 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 3 M T P S T L A P L 11 7342 5 P S T L A P L E V 10 7343 7 T L A P L E V Y V 10 7344 2 I M T P S T L A P 4 7345 9 A P L E V Y V C R 4 7346 4 T P S T L A P L E 2 7347 6 S T L A P L E V Y 2 7348 8 L A P L E V Y V C 2 7349 184P1E2 v.3: HLA Peptide Scoring Results B2709 9-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID NO. 1 D E F L S F V P V 11 7350 7 V P V P D G K G F 11 7351 9 V P D G K G F R M 9 7352 2 E F L S F V P V P 5 7353 4 L S F V P V P D G 4 7354 5 S F V P V P D G K 2 7355 3 F L S F V P V P D 1 7356

TABLE XXXIII SEQ ID Pos 1 2 3 4 5 6 7 8 9 score NO. 184P1E2 v.1: HLA Peptide Scoring Results B4402 9- mers SYFPEITHI 421 K E Y P L G R I L 25 7357 340 A E N R N D R W I 24 7358 177 L E D M S V M V L 23 7359 246 E E R F F V E G L 23 7360 575 T E R K K A T A F 23 7361 60 R E R A D T R R W 22 7362 125 C E G R Q D R N F 22 7363 613 L E E K V R S L L 22 7364 276 N E D F S A S P I 21 7365 520 D E Q V K T I S I 20 7366 99 S H E P L P L A Y 18 7367 259 A G F T G L I S F 18 7368 562 A E C D I I D I P 18 7369 301 S T L P P L E V Y 17 7370 564 C D I I D I P Q L 17 7371 565 D I I D I P Q L F 17 7372 595 K H L G I P K P F 17 7373 191 A A L F D D H K L 16 7374 237 Y E V P R L H G D 16 7375 283 P I F T D T V V F 16 7376 377 Q D F P Y K R I L 16 7377 454 K V Q P P V E L F 16 7378 491 A S P G A C F K L 16 7379 52 K T I S I N Q V L 16 7380 56 M E R G R E R A D 15 7381 263 G L I S F H V T L 15 7382 295 P W I M T P S T L 15 7383 324 A E L A R K A G C 15 7384 352 M E L G Y V Q A P 15 7385 368 F D S P R N G E L 15 7386 422 E Y P L G R I L I 15 7387 426 G R I L I G G N L 15 7388 472 D E F L S F V P A 15 7389 478 V P A P D G K G F 15 7390 492 S P G A C F K L F 15 7391 506 C G H G R A L L F 15 7392 535 K D L I N Y N K F 15 7393 553 E V L K R E L G L 15 7394 614 E E K V R S L L E 15 7395 622 E P L G L H C T F 15 7396 629 T F I D D F T P Y 15 7397 11 L E H P T S A V C 14 7398 35 E G T E M F E V Y 14 7399 43 Y G T P C V D I Y 14 7400 62 R A D T R R W R F 14 7401 74 L E I I V V M N S 14 7402 103 L P L A Y A V L Y 14 7403 131 R N F V D K R Q W 14 7404 166 N C D Q H V H C L 14 7405 193 L F D D H K L V L 14 7406 277 E D F S A S P I F 14 7407 360 P H K T L P V V F 14 7408 394 R E P R D R S V S 14 7409 402 S G L D S F G N L 14 7410 504 Q K C G H G R A L 14 7411 529 N O V L S N K D L 14 7412 547 C I D W N R E V L 14 7413 583 F F P D L V N M L 14 7414 585 P D L V N M L V L 14 7415 589 N M L V L G K H L 14 7416 605 P I I N G C C C L 14 7417 618 R S L L E P L G L 14 7418 621 L E P L C L H C T 14 7419 626 L H C T F I D D F 14 7420 632 D D F T P Y H M L 14 7421 651 C R K P F S F K W 14 7422 652 R K P F S F K W W 14 7423 21 A G V S T L V D I 13 7424 32 S V P E G T E M F 13 7425 68 W R F D A T L E I 13 7426 88 N D S H V Q I S Y 13 7427 97 H S S H E P L P L 13 7428 100 H E P L P L A Y A 13 7429 102 P L P L A Y A V L 13 7430 115 V D I S L D C D L 13 7431 133 F V D K R Q W V W 13 7432 185 L R T Q G P A A L 13 7433 186 R T Q G P A A L F 13 7434 198 K L V L H T S S Y 13 7435 206 Y D A K R A Q V F 13 7436 218 G P E D V C E A Y 13 7437 222 V C E A Y R H V L 13 7438 223 C E A Y R H V L G 13 7439 234 K V S Y E V P R L 13 7440 245 D E E R F F V E G 13 7441 248 R F F V E C L S F 13 7442 264 L I S F H V T L L 13 7443 346 R W I Q D E M E L 13 7444 356 Y V Q A P H K T L 13 7445 396 P R D R S V S G L 13 7446 410 L E V S P P V V A 13 7447 415 P V V A N G K H Y 13 7448 467 A V G H V D E F L 13 7449 469 G H V D E F L S F 13 7450 482 D G K G F R M L L 13 7451 505 K C G H G R A L L 13 7452 518 V D D H Q V K T I 13 7453 552 R E V L K R E L G 13 7454 557 R E L C L A H C D 13 7455 576 E R K K A T A F F 13 7456 647 G T N V C R K P F 13 7457 649 N V C R K P F S F 13 7458 3 L Q R I V R V S L 12 7459 18 V C V A G V E T L 12 7460 22 G V E T L V D I Y 12 7461 23 V E T L V D I Y G 12 7462 37 T E H F E V Y G T 12 7463 66 R R W R F D A T L 12 7464 104 P L A Y A V L Y L 12 7465 142 G P S G Y G G I L 12 7466 143 P S G Y G G I L L 12 7467 208 A K R A Q V F H I 12 7468 242 L H G D E E R F F 12 7469 251 V E G L S F P D A 12 7470 256 F P D A G F T G L 12 7471 271 L L D D S N E D F 12 7472 288 T V V F R V A P W 12 7473 289 V V F R V A P W I 12 7474 298 M T P S T L P P L 12 7475 306 L E V Y V C R V R 12 7476 311 C R V R N N T C F 12 7477 318 C F V D A V A E L 12 7478 339 Q A E N R N D R W 12 7479 348 I Q D E M E L G Y 12 7480 350 D E M E L G Y V Q 12 7481 371 P R N G E L Q D F 12 7482 373 N G E L Q D F P Y 12 7483 37 G E L Q D F P Y K 12 7484 383 R I L G P D F G Y 12 7485 441 R V T Q V V R D F 12 7486 453 Q K V Q P P V E L 12 7487 457 P P V E L F V D W 12 7488 458 P V F L F V D W L 12 7489 459 V E L F V D W L A 12 7490 466 L A V G H V D E F 12 7491 481 P D G K G F R M L 12 7492 532 L S N K D L I N Y 12 7493 542 K F V Q S C I D W 12 7494 551 N R E V L K R E L 12 7495 561 L A E C D I I D I 12 7496 579 K A T A F F P D L 12 7497 612 C L F F K V R S L 12 7498 616 K V R S L L F P L 12 7499 34 P E C T E M F E V 11 7500 40 F E V Y G T P G V 11 7501 44 G T P C V D I Y I 11 7502 79 V M N S P S N D L 11 7503 86 D L N D S H V Q I 11 7504 95 S Y H S S H F P L 11 7505 111 Y L T C V D I S L 11 7506 138 Q W V W C P S G Y 11 7507 169 Q H V H C L Q D L 11 7508 219 P E D V C E A Y R 11 7509 229 V L G Q D K V S Y 11 7510 241 R L H C D E F R F 11 7511 253 G L S F P D A G F 11 7512 257 P D A G F T G L I 11 7513 326 L A R K A G C K L 11 7514 328 R K A G C K L T I 11 7515 376 L Q D F P Y K R I 11 7516 399 R S V S G L D S F 11 7517 417 V A N G K E Y P L 11 7518 442 V T Q V V R D F L 11 7519 530 Q V L S N K D L I 11 7520 558 E L G L A E C D I 11 7521 591 L V L G K H L G I 11 7522 599 I P K P F G P I I 11 7523 42 V Y G T P G V D I 10 7524 69 R F D A T L E I I 10 7525 72 A T L E I I V V M 10 7526 109 V L Y L T C V D I 10 7527 381 Y K R I L G P D F 10 7528 411 E V S P P V V A N 10 7529 489 L L A S P C A C F 10 7530 501 Q E K Q K C G H G 10 7531 582 A F F P D L V N M 10 7532 598 G I P K P F C P I 10 7533 642 G E V H C G T N V 10 7534 101 S P L P L A Y A V 9 7535 141 W G P S G Y G G I 9 7536 192 A L F D D H K L V 9 7537 420 C K F Y P L G R I 9 7538 559 L G L A E C D I I 9 7539 623 P L C L H C T F I 9 7540 484 K G F R M L L A S 8 7541 540 Y N K F V Q S C I 8 7542 567 I D I P Q L F K T 8 7543 601 K P F C P I I N G 8 7544 602 P F G P I I N G C 8 7545 144 S G Y C C I L L V 7 7546 280 S A S P I F T D T 7 7547 292 R V A P W I M T P 7 7548 423 Y P L C R I L I G 7 7549 460 F L F V D W L A V 7 7550 597 L G I P K P F C P 7 7551 1 M S L Q R I V R V 6 7552 2 S L Q R I V R V S 6 7553 4 Q R I V R V S L E 6 7554 12 E H P T S A V C V 6 7555 24 E T L V D I Y G S 6 7556 63 A D T R R W R F D 6 7557 71 D A T L E I I V V 6 7558 75 E I I V V M N S P 6 7559 108 A V L Y L T C V D 6 7560 147 G G I L L V N C D 6 7561 211 A Q V F H I C C P 6 7562 252 E G L S F P D A G 6 7563 254 L S F P D A G F T 6 7564 281 A S P I F T D T V 6 7565 317 T C F V D A V A E 6 7566 322 A V A E L A R K A 6 7567 323 V A E L A R K A G 6 7568 327 A R K A G C K L T 6 7569 362 K T L P V V F D S 6 7570 382 K R I L G P D F G 6 7571 405 D S F G N L E V S 6 7572 436 G S S C R R V T Q 6 7573 473 E F L S F V P A P 6 7574 495 A C F K L F Q E K 6 7575 511 A L L F Q G V V D 6 7576 526 I S I N Q V L S N 6 7577 533 S N K D L I N Y N 6 7578 536 D L I N Y N K F V 6 7579 546 S C I D W N R E V 6 7580 38 E M F E V Y G T P 5 7581 41 E V Y G T P G V D 5 7582 51 Y I S P N N E R G 5 7583 61 E R A D T R R W R 5 7584 80 M N S P S N D L N 5 7585 82 S P S N D L N D S 5 7586 85 N D L N D S H V Q 5 7587 106 A Y A V L Y L T C 5 7588 128 R Q D R N F V D K 5 7589 145 G Y G G I L L V N 5 7590 156 R D D P S C D V Q 5 7591 178 E D M S V M V L R 5 7592 187 T Q G P A A L F D 5 7593 204 S S Y D A K R A Q 5 7594 224 E A Y R H V L G Q 5 7595 225 A Y R H V L G Q D 5 7596 228 H V L G Q D K V S 5 7597 247 E R F F V F C L S 5 7598 265 I S F H V T L L D 5 7599 282 S P I F T D T V V 5 7600 297 I M T P S T L P P 5 7601 302 T L P P L F V Y V 5 7602 330 A G C K L T I C P 5 7603 342 N R N D R W I Q D 5 7604 343 R N D R W I Q D E 5 7605 351 E M E L G Y V Q A 5 7606 359 A P H K T L P V V 5 7607 366 V V F D S P R N G 5 7608 375 E L Q D F P Y K R 5 7609 379 F P Y K R I L G P 5 7610 393 T R E P R D R S V 5 7611 395 E P R D R S V S G 5 7612 412 V S P P V V A N G 5 7613 428 I L I G G N L P G 5 7614 437 S S G R R V T Q V 5 7615 445 V V R D F L H A Q 5 7616 447 R D F L H A Q K V 5 7617 452 A Q K V Q P P V E 5 7618 455 V Q P P V E L F V 5 7619 476 S F V P A P D G K 5 7620 480 A P D G K G F R M 5 7621 490 L A S P G A C F K 5 7622 521 E Q V K T I S I N 5 7623 523 V K T I S I N Q V 5 7624 563 E C D I I D I P Q 5 7625 568 D I P Q L F K T E 5 7626 572 L F K T E R K K A 5 7627 573 F K T E R K K A T 5 7628 580 A T A F F P D L V 5 7629 594 G K H L G I P K P 5 7630 615 E K V R S L L E P 5 7631 643 E V H C G T N V C 5 7632 10 S L E H P T S A V 4 7633 14 P T S A V C V A G 4 7634 17 A V C V A G V E T 4 7635 27 V D I Y G S V P E 4 7636 47 G V D I Y I S P N 4 7637 48 V D I Y I S P N N 4 7638 57 E R G R E R A D T 4 7639 65 T R R W R F D A T 4 7640 81 N S P S N D L N D 4 7641 84 S N D L N D S H V 4 7642 112 L T C V D I S L D 4 7643 118 S L D C D L N C E 4 7644 126 E G R Q D R N F V 4 7645 181 S V M V L R T Q G 4 7646 194 F D D H K L V L H 4 7647 196 D H K L V L H T S 4 7648 203 T S S Y D A K R A 4 7649 205 S Y D A K R A Q V 4 7650 214 F H I C G P E D V 4 7651 216 I C G P E D V C E 4 7652 238 E V P R L H G D E 4 7653 255 S F P D A G F T G 4 7654 260 G F T G L I S F H 4 7655 262 T G L I S F H V T 4 7656 279 F S A S P I F T D 4 7657 287 D T V V F R V A P 4 7658 294 A P W I M T P S T 4 7659 299 T P S T L P P L E 4 7660 303 L P P L E V Y V C 4 7661 307 E V Y V C R V R N 4 7662 315 N N T C F V D A V 4 7663 325 E L A R K A G C K 4 7664 331 G C K L T I C P Q 4 7665 332 C K L T I C P Q A 4 7666 333 K L T I C P Q A E 4 7667 335 T I C P Q A E N R 4 7668 341 E N R N D R W I Q 4 7669 357 V Q A P H K T L P 4 7670 369 D S P R N G E L Q 4 7671 370 S P R N G E L Q D 4 7672 378 D F P Y K R I L G 4 7673 384 I L G P D F G Y V 4 7674 387 P D F G Y V T R E 4 7675 413 S P P V V A N G K 4 7676 418 A N G K E Y P L G 4 7677 424 P L G R I L I G G 4 7678 432 G N L P G S S G R 4 7679 435 P G S S G R R V T 4 7680 438 S G R R V T Q V V 4 7681 448 D F L H A Q K V Q 4 7682 488 M L L A S P G A C 4 7683 497 F K L F Q E K Q K 4 7684 498 K L F Q E K Q K C 4 7685 512 L L F Q G V V D D 4 7686 517 V V D D E Q V K T 4 7687 525 T I S I N Q V L S 4 7688 534 N K D L I N Y N K 4 7689 538 I N Y N K F V Q S 4 7690 548 I D W N R E V L K 4 7691 549 D W N R E V L K R 4 7692 571 Q L F K T E R K K 4 7693 581 T A F F P D L V N 4 7694 586 D L V N M L V L G 4 7695 588 V N M L V L G K H 4 7696 604 G P I I N G C C C 4 7697 610 C C C L E E K V R 4 7698 619 S L L E P L G L H 4 7699 620 L L E P L G L H C 4 7700 633 D F T P Y H M L H 4 7701 8 R V S L E H P T S 3 7702 16 S A V C V A G V E 3 7703 20 V A G V E T L V D 3 7704 31 G S V P E G T E M 3 7705 45 T P G V D I Y I S 3 7706 46 P G V D I Y I S P 3 7707 50 I Y I S P N M E R 3 7708 52 I S P N M E R G R 3 7709 54 P N M E R G R E R 3 7710 55 N M E R G R E R A 3 7711 58 R G R E R A D T R 3 7712 73 T L E I I V V M N 3 7713 78 V V M N S P S N D 3 7714 89 D S H V Q I S Y H 3 7715 92 V Q I S Y H S S H 3 7716 98 S S H E P L P L A 3 7717 110 L Y L T C V D I S 3 7718 113 T C V D I S L D C 3 7719 116 D I S L D C D L N 3 7720 117 I S L D C D L N C 3 7721 120 D C D L N C E G R 3 7722 124 N C E G R Q D R N 3 7723 127 G R Q D R N F V D 3 7724 129 Q D R N F V D K R 3 7725 132 N F V D K R Q W V 3 7726 140 V W G P S G Y G G 3 7727 153 N C D R D D P S C 3 7728 157 D D P S C D V Q D 3 7729 160 S C D V Q D N C D 3 7730 162 D V Q D N C D Q H 3 7731 179 D M S V M V L R T 3 7732 180 M S V M V L R T Q 3 7733 182 V M V L R T Q G P 3 7734 184 V L R T Q G P A A 3 7735 209 K R A Q V F H I C 3 7736 212 Q V F H I C C P E 3 7737 220 E D V C E A Y R H 3 7738 235 V S Y E V P R L H 3 7739 236 S Y S V P R L H G 3 7740 244 G D E E S F F V E 3 7741 266 S F H V T L L D D 3 7742 270 T L L D D S N E D 3 7743 27 D S N E D F S A S 3 7744 278 D F S A S P I F T 3 7745 284 I F T D T V V F R 3 7746 285 F T D T V V F R V 3 7747 286 T D T V V F R V A 3 7748 296 W I N T P S T L P 3 7749 300 P S T L P P L E V 3 7750 308 V Y V C R V R N N 3 7751 309 Y V C R V R N N T 3 7752 310 V C R V R N N T C 3 7753 312 R V R N N T C F V 3 7754 314 R N N T C F V D A 3 7755 319 F V D A V A E L A 3 7756 320 V D A V A E L A R 3 7757 33 L T I C P Q A E N 3 7758 338 P Q A E N R N D R 3 7759 355 G Y V Q A P H K T 3 7760 358 Q A P H K T L P V 3 7761 361 H K T L P V V F D 3 7762 367 V F D S P R N G E 3 7763 380 P Y K R I L G P D 3 7764 385 L G P D F G Y V T 3 7765 38 G P D F C Y V T R 3 7766 391 Y V T R E P R D R 3 7767 400 S V S G L D S F G 3 7768 403 G L D S F G N L E 3 7769 406 S F G N L E V S P 3 7770 409 N L E V S P P V V 3 7771 419 N G K E Y P L G R 3 7772 425 L G R I L I G G N 3 7773 427 R I L I G G N L P 3 7774 429 L I G G N L P G S 3 7775 433 N L P G S S G R R 3 7776 440 R R V T Q V V R D 3 7777 444 Q V V R D F L H A 3 7778 456 Q P P V F L F V D 3 7779 461 L F V D W L A V G 3 7780 462 F V D W L A V G H 3 7781 464 D W L A V G H V D 3 7782 475 L S F V P A P D G 3 7783 483 G K C F R M L L A 3 7784 486 F R N L L A S P G 3 7785 502 E K Q K C G H G R 3 7786 507 G H G R A L L F Q 3 7787 510 R A L L F Q G V V 3 7788 522 Q V K T I S I N Q 3 7789 531 V L S N K D L I N 3 7790 541 N K F V Q S C I D 3 7791 543 F V Q S C I D W N 3 7792 550 W N R E V L K R E 3 7793 554 V L K R E L G L A 3 7794 555 L K R E L G L A E 3 7795 556 K R E L G L A E C 3 7796 574 K T E R K K A T A 3 7797 578 K K A T A F F P D 3 7798 58 F P D L V N M L V 3 7799 590 M L V L G K H L G 3 7800 600 P K P F G P I I N 3 7801 617 V R S L L E P L G 3 7802 628 C T F I D D F T P 3 7803 630 F I D D F T P Y H 3 7804 637 Y H M L H G E V H 3 7805 639 M L H G E V H C G 3 7806 645 H C G T N V C R K 3 7807 646 C G T N V C R K P 3 7808 653 K P F S F K W W N 3 7809 655 F S F K W W N M V 3 7810 5 R I V R V S L E H 2 7811 9 V S L E H P T S A 2 7812 13 H P T S A V C V A 2 7813 19 C V A G V E T L V 2 7814 25 T L V D I Y G S V 2 7815 26 L V D I Y G S V P 2 7816 28 D I Y G S V P E G 2 7817 30 Y G S V P E G T E 2 7818 49 D I Y I S P N M E 2 7819 53 S P N M E R C R E 2 7820 64 D T R R W R F D A 2 7821 67 R W R F D A T L E 2 7822 70 F D A T L E I I V 2 7823 87 L N D S H V Q I S 2 7824 90 S H V Q I S Y H S 2 7825 96 Y H S S H E P L P 2 7826 105 L A Y A V L Y L T 2 7827 107 Y A V L Y L T C V 2 7828 114 C V D I S L D C D 2 7829 121 C D L N C E C R Q 2 7830 122 D L N C E G R Q D 2 7831 130 D R N F V D K R Q 2 7832 134 V D K R Q W V W G 2 7833 146 Y G G I L L V N C 2 7834 148 C I L L V N C D R 2 7835 149 I L L V N C D R D 2 7836 150 L L V N C D R D D 2 7837 152 V N C D R D D P S 2 7838 15 C D R D D P S C D 2 7839 155 D R D D P S C D V 2 7840 158 D P S C D V Q D N 2 7841 163 V Q D N C D Q H V 2 7842 16 Q D N C D Q H V H 2 7843 165 D N C D Q H V H C 2 7844 168 D Q H V H C L Q D 2 7845 171 V H C L Q D L E D 2 7846 172 H C L Q D L E D M 2 7847 174 L Q D L E D M S V 2 7848 175 Q D L E D M S V M 2 7849 176 D L E D M S V M V 2 7850 183 M V L R T Q G P A 2 7851 188 Q G P A A L F D D 2 7852 195 D D H K L V L H T 2 7853 201 L H T S S Y D A K 2 7854 202 H T S S Y D A K R 2 7855 207 D A K R A Q V F H 2 7856 215 H I C G P E D V C 2 7857 217 C G P E D V C S A 2 7858 227 R H V L G Q D K V 2 7859 230 L G Q D K V S Y E 2 7860 243 H G D E E R F F V 2 7861 261 F T G L I S F H V 2 7862 267 F H V T L L D D S 2 7863 269 V T L L D D S N E 2 7864 272 L D D S N E D F S 2 7865 273 D D S N F D F S A 2 7866 275 S N F D F S A S P 2 7867 293 V A P W I N T P S 2 7868 304 P P L E V Y V C R 2 7869 313 V R N N T C F V D 2 7870 316 N T C F V D A V A 2 7871 329 K A G C K L T I C 2 7872 336 I C P Q A E N R N 2 7873 344 N D R W I Q D E M 2 7874 347 W I Q D F M E L G 2 7875 353 E L G Y V Q A P H 2 7876 363 T L P V V F D S P 2 7877 388 D F G Y V T R E P 2 7878 390 G Y V T R F P R D 2 7879 398 D R S V S G L D S 2 7880 404 L D S F C N L S V 2 7881 407 F G N L E V S P P 2 7882 430 I G G N L P G S S 2 7883 439 G R R V T Q V V R 2 7884 443 T Q V V R D F L H 2 7885 446 V R D F L H A Q K 2 7886 449 F L H A Q K V Q P 2 7887 463 V D W L A V G H V 2 7888 470 H V D E F L S F V 2 7889 474 F L S F V P A P D 2 7890 477 F V P A P D G K G 2 7891 479 P A P D G K G F R 2 7892 487 R M L L A S P G A 2 7893 494 G A C F K L F Q E 2 7894 496 C F K L F Q E K Q 2 7895 499 L F Q E K Q K C G 2 7896 508 H G R A L L F Q G 2 7897 509 G R A L L F Q G V 2 7898 513 L F Q G V V D D E 2 7899 516 G V V D D E Q V K 2 7900 527 S I N Q V L S N K 2 7901 528 I N Q V L S N K D 2 7902 537 L I N Y N K F V Q 2 7903 539 N Y N K F V Q S C 2 7904 544 V Q S C I D W N R 2 7905 566 I I D I P Q L F K 2 7906 570 P Q L F K T E R K 2 7907 587 L V N M L V L C K 2 7908 603 F G P I I N G C C 2 7909 606 I I N C C C C L E 2 7910 608 N G C C C L E E K 2 7911 611 C C L E F K V R S 2 7912 624 L G L H C T F I D 2 7913 625 G L H C T F I D D 2 7914 631 I D D F T P Y H M 2 7915 634 F T P Y H M L H G 2 7916 635 T P Y H M L H G E 2 7917 638 H M L H G F V H C 2 7918 644 V H C G T N V C R 2 7919 656 S F K W W N M V P 2 7920 6 I V R V S L E H P 1 7921 7 V R V S L E H P T 1 7922 15 T S A V C V A C V 1 7923 29 I Y G S V P E G T 1 7924 33 V P E G T E M F E 1 7925 36 G T E M F E V Y G 1 7926 59 G R E R A D T R R 1 7927 77 I V V M N S P S N 1 7928 83 P S N D L N D S H 1 7929 91 H V Q I S Y H S S 1 7930 93 Q I S Y H S S H E 1 7931 94 I S Y H S S H E P 1 7932 119 L D C D L N C E G 1 7933 123 L N C E G R Q D R 1 7934 135 D K R Q W V W G P 1 7935 136 K R Q W V W G P S 1 7936 139 W V W G P S G Y G 1 7937 151 L V N C D R D D P 1 7938 159 P S C D V Q D N C 1 7939 167 C D Q H V H C L Q 1 7940 170 H V H C L Q D L E 1 7941 173 C L Q D L E D N S 1 7942 189 G P A A L F D D H 1 7943 190 P A A L F D D H K 1 7944 197 H K L V L H T S S 1 7945 199 L V L H T S S Y D 1 7946 200 V L H T S S Y D A 1 7947 210 R A Q V F H I C G 1 7948 221 D V C E A Y R H V 1 7949 231 G Q D K V S Y E V 1 7950 232 Q D K V S Y E V P 1 7951 233 D K V S Y E V P R 1 7952 239 V P R L H G D E E 1 7953 240 P R L H G D E E R 1 7954 249 F F V E G L S F P 1 7955 250 F V E G L S F P D 1 7956 258 D A G F T G L I S 1 7957 268 H V T L L D D S N 1 7958 290 V F R V A P W I M 1 7959 291 F R V A P W I M T 1 7960 305 P L E V Y V C R V 1 7961 321 D A V A B L A R K 1 7962 337 C P Q A E N R N D 1 7963 349 Q D S N E L C Y V 1 7964 354 L G Y V Q A P H K 1 7965 389 F G Y V T R E P R 1 7966 392 V T R E P R D R S 1 7967 397 R D R S V S G L D 1 7968 401 V S C L D S F G N 1 7969 408 G N L E V S P P V 1 7970 414 P P V V A N G K E 1 7971 416 V V A N G K E Y P 1 7972 431 G G N L P G S S G 1 7973 43 L P G S S G R R V 1 7974 450 L H A Q K V Q P P 1 7975 465 W L A V G H V D E 1 7976 468 V G H V D E F L S 1 7977 471 V D E F L S F V P 1 7978 485 G F R M L L A S P 1 7979 493 P G A C F K L F Q 1 7980 503 K Q K C G H G R A 1 7981 515 Q G V V D D E Q V 1 7982 545 Q S C I D W N R E 1 7983 560 G L A E C D I I D 1 7984 569 I P Q L F K T E R 1 7985 577 R K K A T A F F P 1 7986 592 V L G K H L G I P 1 7987 593 L G K H L G I P K 1 7988 607 I N G C C C L E E 1 7989 609 G C C C L E E K V 1 7990 627 H C T F I D D F T 1 7991 641 H G E V H C G T N 1 7992 648 T N V C R K P F S 1 7993 650 V C R K P F S F K 1 7994 654 P F S F K W W N M 1 7995 184P1E2 v.2: HLA Peptide Scoring Results B4402 9- mers SYFPEITHI 6 S T L A P L E V Y 14 7996 3 M T P S T L A P L 12 7997 2 I M T P S T L A P 7 7998 9 A P L E V Y V C R 5 7999 4 T P S T L A P L E 4 8000 7 T L A P L E V Y V 4 8001 8 L A P L E V Y V C 4 8002 1 W I M T P S T L A 3 8003 5 P S T L A P L E V 3 8004 184P1E2 v.3: HLA Peptide Scoring Results B4402 9- mers SYFPEITHI 1 D E F L S F V P V 15 8005 7 V P V P D G K G F 15 8006 2 E F L S F V P V P 5 8007 5 S F V P V P D G K 5 8008 3 F L S F V P V P D 3 8009 4 L S F V P V P D G 3 8010 6 F V P V P D G K G 2 8011 8 P V P D G K G F R 2 8012 9 V P D G K G F R M 2 8013

TABLE XXXIV 184P1E2 v.1: HLA Peptide Scoring Results B5101 9- mers SYFPEITHI SEQ. ID Pos 1 2 3 4 5 6 7 8 9 score NO. 71 D A T L E I I V V 27 8014 359 A P H K T L P V V 24 8015 561 L A E C D I I D I 24 8016 107 Y A V L Y L T C V 23 8017 282 S P I F T D T V V 23 8018 434 L P G S S G R R V 23 8019 510 R A L L F Q G V V 23 8020 584 F P D L V N M L V 22 8021 599 I P K P F G P I I 22 8022 21 A G V E T L V D I 21 8023 101 E P L P L A Y A V 21 8024 144 S G Y G G I L L V 21 8025 326 L A R K A G C K L 21 8026 358 Q A P H K T L P V 21 8027 451 H A G K V Q P P V 21 8028 559 L G L A E S C I I 21 8029 105 L A Y A V L Y L T 20 8030 191 A A L F D D H K L 20 8031 256 F P D A G F T G L 20 8032 417 V A N G K E Y P L 19 8033 438 S G R R V T Q V V 19 8034 103 L P L A Y A V L Y 18 8035 142 G P S G Y G G I L 18 8036 303 L P P L E V Y V C 18 8037 379 F P Y K R I L G P 18 8038 518 V D D A Q V K T I 18 8039 579 K A T A F F P D L 18 8040 86 D L N D S H V Q I 17 8041 109 V L Y L T C V D I 17 8042 141 W G P S G Y G G I 17 8043 224 E A Y R H V L G Q 17 8044 304 P P L E V Y V C R 17 8045 321 D A V A E L A R K 17 8046 402 S G L D S F G N L 17 8047 423 Y P L G R I L I G 17 8048 482 D G K G F R M L L 17 8049 591 L V L G K H L G I 17 8050 635 T P Y H M L H G E 17 8051 16 S A V C V A G V E 16 8052 158 D P S C D V Q D N 16 8053 221 D V C E A Y R H V 16 8054 243 H G D E E R F F V 16 8055 258 D A G F T G L I S 16 8056 520 D E Q V K T I S I 16 8057 581 T A F F P D L V N 16 8058 13 H P T S A V C V A 15 8059 20 V A G V F T L V D 15 8060 44 G T P G V D I Y I 15 8061 126 E G R Q D R N F V 15 8062 176 D L E D M S V M V 15 8063 207 D A K R A Q V F H 15 8064 285 F T D T V V F R V 15 8065 289 V V F R V A P W I 15 8066 413 S P P V V A N G K 15 8067 456 Q P P V F L F V D 15 8068 466 L A V G H V D E F 15 8069 536 D L I N Y N K F V 15 8070 622 E P L G L H C T F 15 8071 1 M S L Q R I V R V 14 8072 177 L E D M S V M V L 14 8073 208 A K R A Q V F H I 14 8074 262 T G L I S F H V T 14 8075 328 R K A G C K L T I 14 8076 354 L G Y V Q A P H K 14 8077 376 L Q D F P Y K R I 14 8078 408 G N L E V S P P V 14 8079 409 N L E V S P P V V 14 8080 457 P P V F L F V D W 14 8081 515 Q G V V D D E Q V 14 8082 540 Y N K F V Q S C I 14 8083 601 K P F G P I I N G 14 8084 12 E H P T S A V C V 13 8085 33 V P F G T E M F E 13 8086 35 E G T F M F E V Y 13 8087 42 V Y G T P G V D I 13 8088 68 W R F D A T L E I 13 8089 69 R F D A T L E I I 13 8090 155 D R D D P S C D V 13 8091 193 L F D D H K L V L 13 8092 218 G P F D V C F A Y 13 8093 276 N E D F S A S P I 13 8094 293 V A P W I M T P S 13 8095 299 T P S T L P P L E 13 8096 329 K A G C K L T I C 13 8097 337 C P Q A E N R N D 13 8098 385 L G P D F G Y V T 13 8099 386 G P D F G Y V T R 13 8100 414 P P V V A N G K E 13 8101 455 V Q P P V E L F V 13 8102 463 V D W L A V G H V 13 8103 480 A P D G K G F R M 13 8104 490 L A S P G A C F K 13 8105 492 S P G A C F K L F 13 8106 569 I P Q L F K T E R 13 8107 598 G I P K P F C P I 13 8108 18 V C V A G V E T L 12 8109 19 C V A G V E T L V 12 8110 28 D I Y G S V P S G 12 8111 45 T P G V D I Y I S 12 8112 62 R A D T R R W R F 12 8113 82 S P S N D L N D S 12 8114 189 G P A A L F D D H 12 8115 222 V C E A Y R H V L 12 8116 230 L G Q D K V S Y E 12 8117 280 S A S P I F T D T 12 8118 294 A P W I M T P S T 12 8119 305 P L E V Y V C R V 12 8120 323 V A S L A R K A G 12 8121 339 Q A E N R N D R W 12 8122 356 Y V Q A P H K T L 12 8123 364 L P V V F D S P R 12 8124 389 F G Y V T R S P R 12 8125 395 E P R D R S V S G 12 8126 404 L D S F G N L S V 12 8127 419 N G K E Y P L C R 12 8128 420 G K E Y P L C R I 12 8129 422 E Y P L G R I L I 12 8130 447 R D F L H A Q K V 12 8131 464 D W L A V G H V D 12 8132 478 V P A P D G K C F 12 8133 479 P A P D G K G F R 12 8134 494 G A C F K L F Q E 12 8135 523 V K T I S I N Q V 12 8136 530 Q V L S N K D L I 12 8137 583 F F P D L V N N L 12 8138 585 P D L V N M L V L 12 8139 612 C L E E K V R S L 12 8140 632 D D F T P Y H M L 12 8141 655 F S F K W W N M V 12 8142 3 L Q R I V R V S L 11 8143 15 T S A V C V A G V 11 8144 49 D I Y I S P N M E 11 8145 53 S P N M E R G R E 11 8146 58 R G R E R A D T R 11 8147 70 F D A T L S I I V 11 8148 111 Y L T C V D I S L 11 8149 132 N F V D K R Q W V 11 8150 190 P A A L F D D H K 11 8151 192 A L F D D H K L V 11 8152 210 R A Q V F H I C G 11 8153 217 C G P E D V C S A 11 8154 231 G Q D K V S Y E V 11 8155 235 V S Y E V P R L H 11 8156 239 V P R L H G D E E 11 8157 257 P D A G F T G L I 11 8158 264 L I S F H V T L L 11 8159 281 A S P I F T D T V 11 8160 302 T L P P L E V Y V 11 8161 315 N N T C F V D A V 11 8162 340 A E N R N D R W I 11 8163 370 S P R N C E L Q D 11 8164 384 I L C P D F G Y V 11 8165 421 K E Y P L G R I L 11 8166 437 S S G R R V T Q V 11 8167 470 H V D E F L S F V 11 8168 546 S C I D W N R S V 11 8169 589 N M L V L C K H L 11 8170 613 L E E K V R S L L 11 8171 623 P L G L H C T F I 11 8172 646 C G T N V C R K P 11 8173 653 K P F S F K W W N 11 8174 25 T L V D I Y G S V 10 8175 30 Y G S V P E G T E 10 8176 41 E V Y G T P C V D 10 8177 43 Y G T P C V D I Y 10 8178 102 P L P L A Y A V L 10 8179 146 Y G C I L L V N C 10 8180 163 V Q D N C D Q H V 10 8181 174 L Q D L E D M S V 10 8182 205 S Y D A K R A Q V 10 8183 214 F H I C G P E D V 10 8184 227 R H V L G Q D K V 10 8185 259 A G F T G L I S F 10 8186 261 F T C L I S F H V 10 8187 295 P W I M T P S T L 10 8188 298 M T P S T L P P L 10 8189 300 P S T L P P L E V 10 8190 393 T R E P R D R S V 10 8191 405 D S F G N L E V S 10 8192 435 P G S S G R R V T 10 8193 448 D F L H A Q K V Q 10 8194 460 E L F V D W L A V 10 8195 48 K G F R M L L A S 10 8196 491 A S P G A C F K L 10 8197 524 K T I S I N Q V L 10 8198 529 N Q V L S N K D L 10 8199 553 E V L K R E L G L 10 8200 558 E L G L A E C D I 10 8201 597 L G I P K P F G P 10 8202 604 G P I I N G C C C 10 8203 609 G C C C L E E K V 10 8204 618 R S L L E P L G L 10 8205 624 L G L H C T F I D 10 8206 34 P E G T E M F E V 9 8207 40 F E V Y G T P G V 9 8208 66 R R W R F D A T L 9 8209 72 A T L E I I V V M 9 8210 84 S N D L N D S H V 9 8211 10 P L A Y A V L Y L 9 8212 147 G G I L L V N C D 9 8213 166 N C D Q H V H C L 9 8214 179 D M S V M V L R T 9 8215 185 L R T Q G P A A L 9 8216 188 Q G P A A L F D D 9 8217 195 D D H K L V L H T 9 8218 196 D H K L V L H T S 9 8219 234 K V S Y E V P R L 9 8220 252 E G L S F P D A G 9 8221 263 G L I S F H V T L 9 8222 318 C F V D A V A E L 9 8223 349 Q D F N E L G Y V 9 8224 350 D E M E L G Y V Q 9 8225 377 Q D F P Y K R I L 9 8226 396 P R D R S V S G L 9 8227 407 F G N L F V S P P 9 8228 425 L G R I L I G G N 9 8229 430 I G G N L P G S S 9 8230 442 V T Q V V R D F L 9 8231 481 P D C K C F R M L 9 8232 506 C G H G R A L L F 9 8233 509 G R A L L F Q G V 9 8234 538 I N Y N K F V Q S 9 8235 547 C I D W N R E V L 9 8236 549 D W N R E V L K R 9 8237 568 D I P Q L F K T E 9 8238 580 A T A F F P D L V 9 8239 593 L G K H L G I P K 9 8240 603 F G P I I N G C C 9 8241 642 G E V H C G T N V 9 8242 10 S L E H P T S A V 8 8243 46 P G V D I Y I S P 8 8244 79 V M N S P S N D L 8 8245 9 H S S H E P L P L 8 8246 130 D R N F V D K R Q 8 8247 246 E E R F F V E G L 8 8248 278 D F S A S P I F T 8 8249 286 T D T V V F R V A 8 8250 306 L E V Y V C R V R 8 8251 312 R V R N N T C F V 8 8252 330 A G C K L T I C P 8 8253 368 F D S P R N G E L 8 8254 453 Q K V Q P P V E L 8 8255 458 P V F L F V D W L 8 8256 467 A V G H V D E F L 8 8257 472 D E F L S F V P A 8 8258 504 Q K C G H G R A L 8 8259 508 H G R A L L F Q G 8 8260 551 N R E V L K R E L 8 8261 608 N G C C C L E E K 8 8262 636 P Y H M L H G E V 8 8263 641 H Q E V H C G T N 8 8264 9 V S L E H P T S A 7 8265 38 E D F E V Y G T P 7 8266 94 I S Y H S S H E P 7 8267 95 S Y H S S H E P L 7 8268 110 L Y L T C V D I S 7 8269 115 V D I S L D C D L 7 8270 143 P S G Y C G I L L 7 8271 165 D N C D Q H V H C 7 8272 169 Q H V H C L Q D L 7 8273 175 Q D L E D N S V M 7 8274 180 M S V M V L R T Q 7 8275 206 Y D A K R A Q V F 7 8276 228 H V L G Q D K V S 7 8277 274 D S N E D F S A S 7 8278 284 I F T D T V V F R 7 8279 352 M E L G Y V Q A P 7 8280 373 N G E L Q D F P Y 7 8281 378 D F P Y K R I L G 7 8282 387 P D F G Y V T R E 7 8283 388 D F G Y V T R E P 7 8284 410 L E V S P P V V A 7 8285 461 L F V D W L A V G 7 8286 468 V G H V D E F L S 7 8287 493 P G A C F K L F Q 7 8288 513 L F Q G V V D D E 7 8289 519 D D E Q V K T I S 7 8290 550 W N R E V L K R E 7 8291 564 C D I I D I P Q L 7 8292 586 D L V N M L V L G 7 8293 616 K V R S L L E P L 7 8294 2 S L Q R I V R V S 6 8295 11 L E H P T S A V C 6 8296 26 L V D I Y G S V P 6 8297 74 L E I I V V M N S 6 8298 85 N D L N D S H V Q 6 8299 117 I S L D C D L N C 6 8300 135 D K R Q W V W G P 6 8301 145 G Y G G I L L V N 6 8302 157 D D P S C D V Q D 6 8303 20 S S Y D A K R A Q 6 8304 233 D K V S Y E V P R 6 8305 244 G D E E R F F V E 6 8306 245 D E E R F F V E G 6 8307 265 I S F H V T L L D 6 8308 283 P I F T D T V V F 6 8309 301 S T L P P L H V Y 6 8310 307 E V Y V C R V R N 6 8311 316 N T C F V D A V A 6 8312 322 A V A E L A R K A 6 8313 346 R W I Q D E M E L 6 8314 348 I Q D E M F L G Y 6 8315 360 P H K T L P V V F 6 8316 362 K T L P V V F D S 6 8317 366 V V F D S P R N G 6 8318 398 D R S V S G L D S 6 8319 412 V S P P V V A N G 6 8320 426 G R I L I G G N L 6 8321 431 C G N L P G S S G 6 8322 488 M L L A S P G A C 6 8323 499 L F Q E K Q K C G 6 8324 505 K C C H C R A L L 6 8325 511 A L L F Q G V V D 6 8326 512 L L F Q G V V D D 6 8327 565 D I I D I P Q L F 6 8328 571 Q L F K T E R K K 6 8329 572 L F K T E R K K A 6 8330 588 V N M L V L G K H 6 8331 605 P I I N G C C C L 6 8332 611 C C L E E K V R S 6 8333 640 L H G E V H C G T 6 8334 6 I V R V S L E H P 5 8335 29 I Y G S V P E G T 5 8336 52 I S P N M E R G R 5 8337 89 D S H V Q I S Y H 5 8338 108 A V L Y L T C V D 5 8339 122 D L N C E G R Q D 5 8340 127 G R Q D R N F V D 5 8341 133 F V D K R Q W V W 5 8342 148 G I L L V N C D R 5 8343 149 I L L V N C D R D 5 8344 162 D V Q D N C D Q H 5 8345 168 D Q H V H C L Q D 5 8346 199 L V L H T S S Y D 5 8347 270 T L L D D S N E D 5 8348 271 L L D D S N E D F 5 8349 287 D T V V F R V A P 5 8350 309 Y V C R V R N N T 5 8351 310 V C R V R N N T C 5 8352 313 V R N N T C F V D 5 8353 319 F V D A V A E L A 5 8354 336 I C P Q A E N R N 5 8355 345 D R W I Q D F M E 5 8356 363 T L P V V F D S P 5 8357 369 D S P R N C E L Q 5 8358 428 T L I G G N L P G 5 8359 433 N L P G S S G R R 5 8360 439 G R R V T Q V V R 5 8361 440 R R V T Q V V R D 5 8362 441 R V T Q V V R D F 5 8363 450 L H A Q K V Q P P 5 8364 459 V E L F V D W L A 5 8365 477 F V P A P D G K G 5 8366 517 V V D D E Q V K T 5 8367 526 I S I N Q V L S N 5 8368 528 I N Q V L S N K D 5 8369 532 L S N K D L I N Y 5 8370 535 K D L I N Y N K F 5 8371 537 L I N Y N K F V Q 5 8372 555 L K R E L G L A E 5 8373 567 I D I P Q L F K T 5 8374 575 T E R K K A T A F 5 8375 587 L V N M L V L G K 5 8376 595 K H L G I P K P F 5 8377 619 S L L E P L G L H 5 8378 631 I D D F T P Y H M 5 8379 633 D F T P Y H M L H 5 8380 637 Y H M L H G E V H 5 8381 644 V H C G T N V C R 5 8382 1 P T S A V C V A G 4 8383 23 V E T L V D I Y G 4 8384 6 D T R R W R F D A 4 8385 73 T L E I I V V M N 4 8386 76 I I V V M N S P S 4 8387 87 L N D S H V Q I S 4 8388 88 N D S H V Q I S Y 4 8389 116 D I S L D C D L N 4 8390 119 L D C D L N C E G 4 8391 120 D C D L N C E G R 4 8392 123 L N C E G R Q D R 4 8393 129 Q D R N F V D K R 4 8394 156 R D D P S C D V Q 4 8395 183 M V L R T Q G P A 4 8396 194 F D D H K L V L H 4 8397 203 T S S Y D A K R A 4 8398 215 H I C G P E D V C 4 8399 232 Q D K V S Y E V P 4 8400 242 L H G D E E R F F 4 8401 249 F F V E G L S F P 4 8402 25 L S F P D A G F T 4 8403 255 S F P D A G F T G 4 8404 273 D D S N E D F S A 4 8405 279 F S A S P I F T D 4 8406 297 I M T P S T L P P 4 8407 308 V Y V C R V R N N 4 8408 317 T C F V D A V A E 4 8409 375 E L Q D F P Y K R 4 8410 391 Y V T R E P R D R 4 8411 392 V T S S P R D S S 4 8412 394 R E P R D S S V S 4 8413 429 L I G G N L P C S 4 8414 436 G S S C S R V T Q 4 8415 452 A Q K V Q P P V E 4 8416 471 V D E F L S F V P 4 8417 473 E F L S F V P A P 4 8418 474 F L S F V P A P D 4 8419 475 L S F V P A P D G 4 8420 497 F K L F Q E K Q K 4 8421 516 G V V D D E Q V K 4 8422 539 N Y N K F V Q S C 4 8423 548 I D W N R E V L K 4 8424 557 R E L G L A E C D 4 8425 570 P Q L F K T E R K 4 8426 573 F K T E R K K A T 4 8427 610 C C C L E E K V R 4 8428 620 L L E P L G L H C 4 8429 621 L E P L G L H C T 4 8430 626 L H C T F I D D F 4 8431 629 T F I D D F T P Y 4 8432 634 F T P Y H M L H G 4 8433 638 H M L H G E V H C 4 8434 639 M L H G E V H C G 4 8435 643 E V H C G T N V C 4 8436 645 H C G T N V C R K 4 8437 652 R K P F S F K W W 4 8438 656 S F K W W N M V P 4 8439 5 R I V R V S L E H 3 8440 22 G V E T L V D I Y 3 8441 24 E T L V D T Y G S 3 8442 32 S V P E G T E M F 3 8443 37 T E M F E V Y G T 3 8444 39 M F E V Y G T P G 3 8445 50 I Y I S P N M E R 3 8446 51 Y I S P N M E R G 3 8447 54 P N M E R G R E R 3 8448 56 M E R G R E R A D 3 8449 60 R E R A D T R R W 3 8450 61 E R A D T R R W R 3 8451 75 E I I V V M N S P 3 8452 78 V V M N S P S N D 3 8453 80 M N S P S N D L N 3 8454 81 N S P S N D L N D 3 8455 98 S S H S P L P L A 3 8456 106 A Y A V L Y L T C 3 8457 112 L T C V D I S L D 3 8458 113 T C V D I S L D C 3 8459 121 C D L N C E C R Q 3 8460 124 N C E G R Q D R N 3 8461 I50 L L V N C D R D D 3 8462 159 P S C D V Q D N C 3 8463 16 Q D N C D Q H V H 3 8464 172 H C L Q D L E D M 3 8465 178 E D M S V M V L R 3 8466 187 T Q G P A A L F D 3 8467 197 H K L V L H T S S 3 8468 200 V L H T S S Y D A 3 8469 201 L H T S S Y D A K 3 8470 202 H T S S Y D A K R 3 8471 209 K R A Q V F H I C 3 8472 216 I C G P E D V C E 3 8473 225 A Y R H V L G Q D 3 8474 237 Y E V P R L H G D 3 8475 247 E R F F V E G L S 3 8476 251 V E G L S F P D A 3 8477 266 S F H V T L L D D 3 8478 267 F H V T L L D D S 3 8479 269 V T L L D D S N E 3 8480 288 T V V F R V A P W 3 8481 291 F R V A P W I M T 3 8482 292 R V A P W I M T P 3 8483 314 R N N T C F V D A 3 8484 324 A E L A R K A G C 3 8485 332 C K L T I C P Q A 3 8486 338 P Q A E N R N D R 3 8487 342 N R N D R W I Q D 3 8488 355 G Y V Q A P H K T 3 8489 361 H K T L P V V F D 3 8490 374 G E L Q D F P Y K 3 8491 383 R I L G P D F G Y 3 8492 411 E V S P P V V A N 3 8493 427 R I L I G G N L P 3 8494 444 Q V V R D F L H A 3 8495 445 V V R D F L H A Q 3 8496 449 F L H A Q K V Q P 3 8497 462 F V D W L A V G H 3 8498 469 G H V D E F L S F 3 8499 495 A C F K L F Q E K 3 8500 498 K L F Q F K Q K C 3 8501 514 F Q G V V D D E Q 3 8502 521 F Q V K T I S I N 3 8503 527 S I N Q V L S N K 3 8504 531 V L S N K D L I N 3 8505 533 S N K D L I N Y N 3 8506 560 C L A E C D I I D 3 8507 566 I I D I P Q L F K 3 8508 574 K T E R K K A T A 3 8509 577 R K K A T A F F P 3 8510 582 A F F P D L V N M 3 8511 592 V L G K H L G I P 3 8512 594 G K H L G I P K P 3 8513 600 P K P F C P I I N 3 8514 606 I I N G C C C L E 3 8515 607 I N G C C C L E E 3 8516 615 E K V R S L L E P 3 8517 625 G L H C T F I D D 3 8518 628 C T F I D D F T P 3 8519 649 N V C R K P F S F 3 8520 650 V C R K P F S F K 3 8521 4 Q R I V R V S L E 2 8522 8 R V S L E H P T S 2 8523 27 V D I Y G S V P E 2 8524 47 C V D I Y I S P N 2 8525 55 N M E R G R E R A 2 8526 59 G R E R A D T R R 2 8527 65 T R R W R F D A T 2 8528 67 R W R F D A T L E 2 8529 77 I V V M N S P S N 2 8530 83 P S N D L N D S H 2 8531 92 V Q I S Y H S S H 2 8532 96 Y H S S H E P L P 2 8533 99 S H E P L P L A Y 2 8534 100 H E P L P L A Y A 2 8535 114 C V D I S L D C D 2 8536 118 S L D C D L N C E 2 8537 128 R Q D R N F V D K 2 8538 131 R N F V D K R Q W 2 8539 134 V D K R Q W V W G 2 8540 136 K R Q W V W G P S 2 8541 139 W V W G P S G Y G 2 8542 140 V W G P S G Y G G 2 8543 151 L V N C D R D D P 2 8544 152 V N C D R D D P S 2 8545 154 C D R D D P S C D 2 8546 167 C D Q H V H C L Q 2 8547 171 V H C L Q D L E D 2 8548 184 V L R T Q C P A A 2 8549 186 F T Q C P A A L F 2 8550 220 E D V C F A Y R H 2 8551 226 Y R H V L G Q D K 2 8552 229 V L G Q D K V S Y 2 8553 236 S Y E V P R L H G 2 8554 240 P R L H G D E E R 2 8555 241 R L H G D E E R F 2 8556 248 R F F V E G L S F 2 8557 250 F V E G L S F P D 2 8558 260 G F T G L I S F H 2 8559 272 L D D S N E D F S 2 8560 290 V F R V A P W I M 2 8561 296 W I M T P S T L P 2 8562 311 C R V R N N T C F 2 8563 320 V D A V A E L A R 2 8564 325 E L A R K A G C K 2 8565 327 A R K A G C K L T 2 8566 331 G C K L T I C P Q 2 8567 334 L T I C P Q A E N 2 8568 335 T I C P Q A E N R 2 8569 353 E L G Y V Q A P H 2 8570 357 V Q A P H K T L P 2 8571 367 V F D S P R N G E 2 8572 371 P R N C E L Q D F 2 8573 372 R N G E L Q D F P 2 8574 381 Y K R I L G P D F 2 8575 390 C Y V T R F P R D 2 8576 397 R D R S V S G L D 2 8577 415 P V V A N G K E Y 2 8578 424 P L G R I L I G G 2 8579 432 G N L P G S S G R 2 8580 454 K V Q P P V E L F 2 8581 486 F R M L L A S P G 2 8582 487 R M L L A S P G A 2 8583 489 L L A S P G A C F 2 8584 496 C F K L F Q E K Q 2 8585 500 F Q E K Q K C C H 2 8586 501 Q E K Q K C C H G 2 8587 507 G H G R A L L F Q 2 8588 522 Q V K T I S I N Q 2 8589 525 T I S I N Q V L S 2 8590 534 N K D L I N Y N K 2 8591 541 N K F V Q S C I D 2 8592 542 K F V Q S C I D W 2 8593 543 F V Q S C I D W N 2 8594 545 Q S C I D W N R E 2 8595 554 V L K R E L C L A 2 8596 562 A E C D I I D I P 2 8597 578 K K A T A F F P D 2 8598 602 P F C P I I N C C 2 8599 630 F I D D F T P Y H 2 8600 651 C R K P F S F K W 2 8601 7 V R V S L F H P T 1 8602 17 A V C V A G V E T 1 8603 31 G S V P E G T E M 1 8604 3 G T E M F E V Y G 1 8605 48 V D T Y I S P N M 1 8606 63 A D T R R W R F D 1 8607 90 S H V Q I S Y H S 1 8608 91 H V Q I S Y H S S 1 8609 93 Q I S Y H S S H E 1 8610 125 C E G R Q D R N F 1 8611 137 R Q W V W G P S G 1 8612 138 Q W V W G P S G Y 1 8613 153 N C D R D D P S C 1 8614 160 S C D V Q D N C D 1 8615 161 C D V Q D N C D Q 1 8616 173 C L Q D L E D M S 1 8617 181 S V M V L R T Q G 1 8618 182 V M V L R T Q C P 1 8619 211 A Q V F H I C G P 1 8620 212 Q V F H I C G P E 1 8621 213 V F H I C C P E D 1 8622 223 C E A Y R H V L G 1 8623 238 E V P R L H G D E 1 8624 275 S N E D F S A S P 1 8625 277 E D F S A S P I F 1 8626 333 K L T I C P Q A E 1 8627 343 R N D R W I Q D E 1 8628 344 N D R W I Q D E M 1 8629 347 W I Q D E M E L G 1 8630 351 E M E L G Y V Q A 1 8631 365 P V V F D S P R N 1 8632 380 P Y K R I L C P D 1 8633 382 K R I L G P D F G 1 8634 399 R S V S G L D S F 1 8635 400 S V S G L D S F G 1 8636 401 V S C L D S F G N 1 8637 403 G L D S F G N L E 1 8638 406 S F G N L E V S P 1 8639 416 V V A N C K E Y P 1 8640 418 A N G K E Y P L G 1 8641 443 T Q V V R D F L H 1 8642 446 V R D F L H A Q K 1 8643 465 W L A V G H V D E 1 8644 476 S F V P A P D G K 1 8645 483 G K C F R M L L A 1 8646 485 C F R M L L A S P 1 8647 502 E K Q K C G H G R 1 8648

TABLE XXXV SEQ. ID Pos 1 2 3 4 5 6 7 8 9 0 score NO. 184P1E2 v.1: HLA Peptide Scoring Results A1 10-mers SYFPEITHI 87 L N D S H V Q I S Y 29 8649 98 S S H E P L P L A Y 27 8650 628 C T F I D D F T P Y 24 8651 285 F T D T V V F R V A 21 8652 347 W I Q D E M E L G Y 21 8653 531 V L S N K D L I N Y 21 8654 300 P S T L P P L E V Y 20 8655 34 P E G T E M F E V Y 19 8656 102 P L P L A Y A V L Y 18 8657 194 F D D H K L V L H T 18 8658 403 G L D S F G N L E V 18 8659 584 F P D L V N M L V L 18 8660 613 L E E K V R S L L E 18 8661 21 A G V E T L V D I Y 17 8662 36 G T E M F E V Y G T 17 8663 42 V Y G T P G V D I Y 17 8664 319 F V D A V A E L A R 17 8665 99 S H E P L P L A Y A 16 8666 228 H V L G Q D K V S Y 16 8667 393 T R E P R D R S V S 16 8668 414 P P V V A N G K E Y 16 8669 480 A P D G K G F R M L 16 8670 574 K T E R K K A T A F 16 8671 137 R Q W V W G P S G Y 15 8672 197 H K L V L H T S S Y 15 8673 217 C G P E D V C E A Y 15 8674 250 F V E G L S F P D A 15 8675 372 R N G E L Q D F P Y 15 8676 382 K R I L G P D F G Y 15 8677 620 L L E P L G L H C T 15 8678 10 S L E H P T S A V C 14 8679 22 G V E T L V D I Y G 14 8680 69 R F D A T L E I I V 14 8681 118 S L D C D L N C E G 14 8682 156 R D D P S C D V Q D 14 8683 243 H G D E E R F F V E 14 8684 471 V D E F L S F V P A 14 8685 519 D D E Q V K T I S I 14 8686 580 A T A F F P D L V N 14 8687 612 C L E E K V R S L L 14 8688 84 S N D L N D S H V Q 13 8689 128 R Q D R N F V D K R 13 8690 160 S C D V Q D N C D Q 13 8691 176 D L E D M S V M V L 13 8692 186 R T Q G P A A L F D 13 8693 205 S Y D A K R A Q V F 13 8694 222 V C E A Y R H V L G 13 8695 244 G D E E R F F V E G 13 8696 256 F P D A G F T G L I 13 8697 362 K T L P V V F D S P 13 8698 373 N G E L Q D F P Y K 13 8699 446 V R D F L H A Q K V 13 8700 551 N R E V L K R E L G 13 8701 33 V P E G T E M F E V 12 8702 73 T L E I I V V M N S 12 8703 112 L T C V D I S L D C 12 8704 143 P S G Y G G I L L V 12 8705 163 V Q D N C D Q H V H 12 8706 166 N C D Q H V H C L Q 12 8707 177 L E D M S V M V L R 12 8708 193 L F D D H K L V L H 12 8709 235 V S Y F V P R L H C 12 8710 236 S Y E V P R L H G D 12 8711 275 S N E D F S A S P I 12 8712 301 S T L P P L E V Y V 12 8713 305 P L E V Y V C R V R 12 8714 349 Q D E M E L G Y V Q 12 8715 367 V F D S P R N G E L 12 8716 396 P R D R S V S G L D 12 8717 409 N L E V S P P V V A 12 8718 458 P V E L F V D W L A 12 8719 462 F V D W L A V G H V 12 8720 517 V V D D F Q V K T I 12 8721 534 N K D L I N Y N K F 12 8722 547 C I D W N R F V L K 12 8723 566 I I D I P Q L F K T 12 8724 124 N C E G R Q D R N F 11 8725 133 F V D K R Q W V W C 11 8726 155 D R D D P S C D V Q 11 8727 174 L Q D L E D N S V M 11 8728 231 G Q D K V S Y E V P 11 8729 245 D E E R F F V E G L 11 8730 261 F T G L I S F H V T 11 8731 271 L L D D S N E D F S 11 8732 323 V A E L A R K A G C 11 8733 351 E M E L G Y V Q A P 11 8734 357 V Q A P H K T L P V 11 8735 377 Q D F P Y K R I L G 11 8736 386 G P D F G Y V T R E 11 8737 420 G K E Y P L G R I L 11 8738 421 K E Y P L G R I L I 11 8739 470 H V D E F L S F V P 11 8740 491 A S P G A C F K L F 11 8741 500 F Q E K Q K C G H G 11 8742 518 V D D S Q V K T I S 11 8743 630 F I D D F T P Y H M 11 8744 631 I D D F T P Y H M L 11 8745 641 H G E V H C G T N V 11 8746 26 L V D I Y G S V P E 10 8747 39 M F E V Y G T P G V 10 8748 43 Y G T P G V D I Y I 10 8749 47 G V D I Y I S P N M 10 8750 55 N M E K G K S K A D 10 8751 59 G R E R A D T R R W 10 8752 62 R A D T R R W R F D 10 8753 80 M N S P S N D L N D 10 8754 114 C V D I S L D C D L 10 8755 120 D C D L N C E G R Q 10 8756 144 S C Y G G I L L V N 10 8757 153 N C D R D D P S C D 10 8758 218 G P E D V C E A Y R 10 8759 219 P S D V C E A Y R H 10 8760 265 I S F H V T L L D D 10 8761 272 L D D S N E D F S A 10 8762 276 N E D F S A S P I F 10 8763 339 Q A E N R N D R W I 10 8764 343 K N D K W I Q D E M 10 8765 348 I Q D E M E L G Y V 10 8766 369 D S P R N C E L Q D 10 8767 376 L Q D F P Y K K I L 10 8768 454 K V Q P P V S L F V 10 8769 468 V G H V D E F L S F 10 8770 556 K R E L G L A F C D 10 8771 561 L A E C D I I D I P 10 8772 563 E C D I I D I P Q L 10 8773 619 S L L E P L G L H C 10 8774 633 D F T P Y H M L H G 10 8775 31 G S V P E G T E M F 9 8776 64 D T R K W K F D A T 9 8777 72 A T L E I I V V M N 9 8778 192 A L F D D H K L V L 9 8779 254 L S F P D A C F T C 9 8780 412 V S P P V V A N G K 9 8781 442 V T Q V V R D F L H 9 8782 443 T Q V V R D F L H A 9 8783 482 D G K G F R M L L A 9 8784 548 I D W N R S V L K R 9 8785 55 V L K R E L G L A E 9 8786 19 C V A G V S T L V D 8 8787 96 Y H S S H E P L P L 8 8788 142 G P S G Y G G I L L 8 8789 257 P D A G F T G L I S 8 8790 264 L I S F H V T L L D 8 8791 279 F S A S P I F T D T 8 8792 298 M T P S T L P P L E 8 8793 368 F D S P R N G E L Q 8 8794 401 V S G L D S F G N L 8 8795 476 S F V P A P D G K G 8 8796 492 S P G A C F K L F Q 8 8797 505 K C G H G R A L L F 8 8798 524 K T I S I N Q V L S 8 8799 586 D L V N M L V L G K 8 8800 599 I P K P F G P I I N 8 8801 14 P T S A V C V A G V 7 8802 44 G T P G V D I Y I S 7 8803 103 L P L A Y A V L Y L 7 8804 178 E D M S V M V L R T 7 8805 204 S S Y D A K K A Q V 7 8806 223 C S A Y K H V L G Q 7 8807 247 E R F F V S G L S F 7 8808 269 V T L L D D S N E D 7 8809 287 D T V V F R V A P W 7 8810 302 T L P P L E V Y V C 7 8811 327 A K K A G C K L T I 7 8812 384 I L G P D F C Y V T 7 8813 392 V T R E P R D R S V 7 8814 397 R D R S V S C L D S 7 8815 418 A N G K S Y P L G R 7 8816 423 Y P L C K I L I G G 7 8817 427 R I L I G C N L P G 7 8818 437 S S G R R V T Q V V 7 8819 459 V E L F V D W L A V 7 8820 506 C C H G R A L L F Q 7 8821 525 T I S I N Q V L S N 7 8822 567 I D I P Q L F K T S 7 8823 582 A F F P D L V N M L 7 8824 590 M L V L G K H L G I 7 8825 592 V L G K H L C I P K 7 8826 597 L G I P K P F G P I 7 8827 606 I I N G C C C L E E 7 8828 617 V R S L L E P L G L 7 8829 62 L G L H C T F I D D 7 8830 634 F T P Y H M L H G K 7 8831 651 C R K P F S F K W W 7 8832 655 F S F K W W N M V P 7 8833 1 M S L Q R I V R V S 6 8834 4 Q R I V R V S L E H 6 8835 24 E T L V D I Y G S V 6 8836 51 Y I S P N M K R G R 6 8837 67 R W R F D A T L E I 6 8838 70 F D A T L E I I V V 6 8839 97 H S S H K P L P L A 6 8840 105 L A Y A V L Y L T C 6 8841 116 D I S L D C D L N C 6 8842 167 C D Q H V H C L Q D 6 8843 170 H V H C L Q D L E D 6 8844 202 H T S S Y D A K R A 6 8845 237 Y E V P R L H G D E 6 8846 280 S A S P I F T D T V 6 8847 281 A S P I F T D T V V 6 8848 290 V F R V A P W I H T 6 8849 296 W I M T P S T L P P 6 8850 299 T P S T L P P L E V 6 8851 316 N T C F V D A V A E 6 8852 334 L T I C P Q A E N R 6 8853 378 D F P Y K R I L G P 6 8854 422 E Y P L C K I L I C 6 8855 436 C S S G R R V T Q V 6 8856 455 V Q P P V E L F V D 6 8857 483 C K G F R M L L A S 6 8858 490 L A S P G A C F K L 6 8859 530 Q V L S N K D L I N 6 8860 552 K E V L K R K L G L 6 8861 565 D I I D I P Q L F K 6 8862 614 E E K V R S L L E P 6 8863 618 R S L L K P L C L H 6 8864 647 C T N V C R K P F S 6 8865 9 V S L E H P T S A V 5 8866 15 T S A V C V A C V E 5 8867 52 I S P N M E K C R E 5 8868 101 E P L P L A Y A V L 5 8869 111 Y L T C V D I S L D 5 8870 140 V W G P S C Y C G I 5 8871 180 N S V M V L R T Q C 5 8872 216 I C G P E D V C E A 5 8873 255 S F P D A C F T G L 5 8874 402 S C L D S F G N L K 5 8875 405 D S F G N L E V S P 5 8876 411 E V S P P V V A N C 5 8877 413 S P P V V A N G K E 5 8878 478 V P A P D G K G F R 5 8879 545 Q S C I D W N R E V 5 8880 560 G L A K C D I I D I 5 8881 562 A E C D I I D I P Q 5 8882 602 P F G P I I N G C C 5 8883 2 S L Q R I V R V S L 4 8884 11 L E H P T S A V C V 4 8885 45 T P G V D I Y I S P 4 8886 79 V N N S P S N D L N 4 8887 81 N S P S N D L N D S 4 8888 83 P S N D L N D S H V 4 8889 89 D S H V Q I S Y H S 4 8890 94 I S Y H S S H E P L 4 8891 95 S Y H S S H E P L P 4 8892 110 L Y L T C V D I S L 4 8893 117 I S L D C D L N C K 4 8894 159 P S C D V Q D N C D 4 8895 187 T Q G P A A L F D D 4 8896 203 T S S Y D A K R A Q 4 8897 208 A K R A Q V F H I C 4 8898 209 K R A Q V F H I C G 4 8899 226 Y R H V L G Q D K V 4 8900 258 D A G F T G L I S F 4 8901 263 G L I S F H V T L L 4 8902 274 D S N E D F S A S P 4 8903 277 K D F S A S P I F T 4 8904 292 R V A P W I M T P S 4 8905 297 I N T P S T L P P L 4 8906 313 V R N N T C F V D A 4 8907 325 E L A R K A G C K L 4 8908 329 K A G C K L T I C P 4 8909 335 T I C P Q A K N R N 4 8910 341 K N R N D K W I Q D 4 8911 356 Y V Q A P H K T L P 4 8912 383 K I L C P D F C Y V 4 8913 399 K S V S C L D S F C 4 8914 417 V A N C K E Y P L C 4 8915 432 C N L P C S S C R K 4 8916 475 L S F V P A P D G K 4 8917 504 Q K C C H C K A L L 4 8918 521 E Q V K T I S I N Q 4 8919 526 I S I N Q V L S N K 4 8920 527 S I N Q V L S N K D 4 8921 532 L S N K D L I N Y N 4 8922 541 N K F V Q S C I D W 4 8923 546 S C I D W N R E V L 4 8924 559 L G L A F C D I I D 4 8925 571 Q L F K T K R K K A 4 8926 583 F F P D L V N M L V 4 8927 600 P K P F G P I I N G 4 8928 3 L Q R I V R V S L E 3 8929 16 S A V C V A C V E T 3 8930 18 V C V A C V S T L V 3 8931 25 T L V D I Y C S V P 3 8932 30 Y C S V P E G T E M 3 8933 53 S P N M E R G R E R 3 8934 82 S P S N D L N D S H 3 8935 104 P L A Y A V L Y L T 3 8936 107 Y A V L Y L T C V D 3 8937 109 V L Y L T C V D I S 3 8938 115 V D I S L D C D L N 3 8939 127 C R Q D R N F V D K 3 8940 146 Y C G I L L V N C D 3 8941 188 Q G P A A L F D D H 3 8942 191 A A L F D D H K L V 3 8943 229 V L G Q D K V S Y E 3 8944 273 D D S N F D F S A S 3 8945 282 S P I F T D T V V F 3 8946 309 Y V C K V R N N T C 3 8947 391 Y V T R F P K D R S 3 8948 400 S V S G L D S F G N 3 8949 406 S F G N L E V S P P 3 8950 426 C R I L I C G N L P 3 8951 433 N L P C S S C R R V 3 8952 438 S C R R V T Q V V K 3 8953 449 F L H A Q K V Q P P 3 8954 453 Q K V Q P P V F L F 3 8955 456 Q P P V F L F V D W 3 8956 463 V D W L A V G H V D 3 8957 467 A V G H V D E F L S 3 8958 481 P D G K C F R M L L 3 8959 494 C A C F K L F Q E K 3 8960 495 A C F K L F Q F K Q 3 8961 497 F K L F Q E K Q K C 3 8962 508 H G R A L L F Q G V 3 8963 511 A L L F Q G V V D D 3 8964 523 V K T I S I N Q V L 3 8965 533 S N K D L I N Y N K 3 8966 537 L I N Y N K F V Q S 3 8967 577 R K K A T A F F P D 3 8968 578 K K A T A F F P D L 3 8969 644 V H C G T N V C R K 3 8970 649 N V C R K P F S F K 3 8971 650 V C R K P F S F K W 3 8972 12 E H P T S A V C V A 2 8973 17 A V C V A C V E T L 2 8974 27 V D I Y G S V P E G 2 8975 32 S V P S G T S M F S 2 8976 40 F E V Y G T P C V D 2 8977 41 E V Y G T P C V D I 2 8978 48 V D I Y I S P N M S 2 8979 56 M E R G R E R A D T 2 8980 63 A D T R R W R F D A 2 8981 66 R R W R F D A T L E 2 8982 86 D L N D S H V Q I S 2 8983 90 S H V Q I S Y H S S 2 8984 122 D L N C F C R Q D R 2 8985 126 E G R Q D R N F V D 2 8986 134 V D K R Q W V W G P 2 8987 139 W V W G P S G Y G C 2 8988 150 L L V N C D K D D P 2 8989 169 Q H V H C L Q D L F 2 8990 181 S V M V L R T Q G P 2 8991 184 V L R T Q G P A A L 2 8992 185 L K T Q C P A A L F 2 8993 190 P A A L F D D H K L 2 8994 200 V L H T S S Y D A K 2 8995 201 L H T S S Y D A K R 2 8996 206 Y D A K R A Q V F H 2 8997 214 F H I C G P E D V C 2 8998 221 D V C E A Y R H V L 2 8999 225 A Y R H V L G Q D K 2 9000 234 K V S Y F V P R L H 2 9001 241 R L H G D E F R F F 2 9002 246 E E R F F V F C L S 2 9003 266 S F H V T L L D D S 2 9004 270 T L L D D S N E D F 2 9005 295 P W I M T P S T L P 2 9006 308 V Y V C R V K N N T 2 9007 310 V C R V R N N T C F 2 9008 318 C F V D A V A E L A 2 9009 321 D A V A E L A R K A 2 9010 322 A V A E L A R K A G 2 9011 326 L A R K A C C K L T 2 9012 340 A E N R N D R W I Q 2 9013 346 R W I Q D E M K L C 2 9014 354 L G Y V Q A P H K T 2 9015 359 A P H K T L P V V F 2 9016 366 V V F D S P R N G K 2 9017 370 S P R N G K L Q D F 2 9018 374 C K L Q D F P Y K R 2 9019 381 Y K R I L G P D F G 2 9020 428 I L I G C N L P G S 2 9021 434 L P G S S C R R V T 2 9022 460 E L F V D W L A V G 2 9023 465 W L A V G H V D E F 2 9024 474 F L S F V P A P D G 2 9025 477 F V P A P D G K G F 2 9026 488 M L L A S P G A C F 2 9027 510 R A L L F Q G V V D 2 9028 512 L L F Q G V V D D K 2 9029 516 C V V D D E Q V K T 2 9030 529 N Q V L S N K D L I 2 9031 536 D L I N Y N K F V Q 2 9032 540 Y N K F V Q S C I D 2 9033 553 E V L K R K L C L A 2 9034 564 C D I I D I P Q L F 2 9035 570 P Q L F K T E R K K 2 9036 579 K A T A F F P D L V 2 9037 585 P D L V N M L V L G 2 9038 587 L V N M L V L G K H 2 9039 588 V N M L V L C K H L 2 9040 589 N M L V L G K H L C 2 9041 593 L C K H L G I P K P 2 9042 603 F G P I I N G C C C 2 9043 605 P I I N G C C C L K 2 9044 608 N C C C C L E E K V 2 9045 616 K V R S L L K P L G 2 9046 632 D D F T P Y H M L H 2 9047 636 P Y H M L H G E V H 2 9048 637 Y H M L H G E V H C 2 9049 639 M L H C K V H C G T 2 9050 645 H C G T N V C R K P 2 9051 7 V R V S L E H P T S 1 9052 20 V A G V E T L V D I 1 9053 23 V K T L V D I Y G S 1 9054 28 D I Y C S V P E G T 1 9055 38 E M F E V Y C T P C 1 9056 49 D I Y I S P N M E R 1 9057 54 P N H E R C R E R A 1 9058 60 R E R A D T R R W R 1 9059 61 E R A D T R R W R F 1 9060 71 D A T L E I I V V N 1 9061 75 K I I V V M N S P S 1 9062 78 V V H N S P S N D L 1 9063 92 V Q I S Y H S S H K 1 9064 106 A Y A V L Y L T C V 1 9065 108 A V L Y L T C V D I 1 9066 121 C D L N C E G R Q D 1 9067 125 C E G R Q D R N F V 1 9068 131 R N F V D K R Q W V 1 9069 132 N F V D K R Q W V W 1 9070 136 K R Q W V W G P S G 1 9071 141 W C P S G Y G G I L 1 9072 145 G Y G G I L L V N C 1 9073 147 G C I L L V N C D R 1 9074 149 I L L V N C D R D D 1 9075 152 V N C D R D D P S C 1 9076 157 D D P S C D V Q D N 1 9077 165 D N C D Q H V H C L 1 9078 171 V H C L Q D L K D M 1 9079 172 H C L Q D L K D M S 1 9080 173 C L Q D L E D M S V 1 9081 175 Q D L K D M S V M V 1 9082 182 V M V L R T Q G P A 1 9083 183 M V L R T Q G P A A 1 9084 198 K L V L H T S S Y D 1 9085 207 D A K R A Q V F H I 1 9086 211 A Q V F H I C G P E 1 9087 212 Q V F H I C C P E D 1 9088 213 V F H I C G P E D V 1 9089 215 H I C C P E D V C K 1 9090 227 R H V L G Q D K V S 1 9091 233 D K V S Y K V P R L 1 9092 238 K V P R L H C D E E 1 9093 239 V P R L H C D K E R 1 9094 242 L H G D E K R F F V 1 9095 249 F F V E G L S F P D 1 9096 251 V E G L S F P D A C 1 9097 253 G L S F P D A C F T 1 9098 259 A G F T G L I S F H 1 9099 260 G F T C L I S F H V 1 9100 267 F H V T L L D D S N 1 9101 283 P I F T D T V V F R 1 9102 284 I F T D T V V F R V 1 9103 286 T D T V V F R V A P 1 9104 289 V V F R V A P W I M 1 9105 291 F R V A P W I M T P 1 9106 293 V A P W I M T P S T 1 9107 294 A P W I M T P S T L 1 9108 304 P P L S V Y V C R V 1 9109 306 L E V Y V C R V R N 1 9110 307 E V Y V C R V R N N 1 9111 312 R V R N N T C F V D 1 9112 31 R N N T C F V D A V 1 9113 315 N N T C F V D A V A 1 9114 317 T C F V D A V A E L 1 9115 320 V D A V A S L A R K 1 9116 324 A E L A R K A G C K 1 9117 328 R K A G C K L T I C 1 9118 330 A G C K L T I C P Q 1 9119 333 K L T I C P Q A E N 1 9120 336 I C P Q A S N K N D 1 9121 337 C P Q A E N R N D R 1 9122 338 P Q A E N K N D R W 1 9123 344 N D R W I Q D E H E 1 9124 352 M S L G Y V Q A P H 1 9125 353 E L G Y V Q A P H K 1 9126 358 Q A P H K T L P V V 1 9127 360 P H K T L P V V F D 1 9128 361 H K T L P V V F D S 1 9129 363 T L P V V F D S P K 1 9130 371 P R N G S L Q D F P 1 9131 375 S L Q D F P Y K R I 1 9132 379 F P Y K K I L G P D 1 9133 380 P Y K R I L C P D F 1 9134 387 P D F G Y V T R I P 1 9135 388 D F G Y V T R S P R 1 9136 389 F G Y V T R E P R D 1 9137 395 E P R D R S V S G L 1 9138 404 L D S F C N L E V S 1 9139 407 F C N L E V S P P V 1 9140 408 G N L E V S P P V V 1 9141 410 L E V S P P V V A N 1 9142 416 V V A N G K E Y P L 1 9143 424 P L G R I L I G G N 1 9144 425 L G R I L I G G N L 1 9145 429 L I G G N L P C S S 1 9146 430 I C G N L P G S S C 1 9147 435 P G S S C R R V T Q 1 9148 439 G R R V T Q V V R D 1 9149 440 R R V T Q V V R D F 1 9150 441 R V T Q V V R D F L 1 9151 445 V V R D F L H A Q K 1 9152 447 R D F L H A Q K V Q 1 9153 451 H A Q K V Q P P V E 1 9154 452 A Q K V Q P P V E L 1 9155 457 P P V K L F V D W L 1 9156 466 L A V G H V D S F L 1 9157 472 D S F L S F V P A P 1 9158 479 P A P D G K G F R M 1 9159 486 F R H L L A S P G A 1 9160 489 L L A S P G A C F K 1 9161 498 K L F Q S K Q K C G 1 9162 501 Q S K Q K C G H G R 1 9163 503 K Q K C G H C R A L 1 9164 509 G R A L L F Q G V V 1 9165 513 L F Q C V V D D I Q 1 9166 514 F Q G V V D D E Q V 1 9167 515 Q G V V D D E Q V K 1 9168 528 I N Q V L S N K D L 1 9169 535 K D L I N Y N K F V 1 9170 538 I N Y N K F V Q S C 1 9171 543 F V Q S C I D W N K 1 9172 544 V Q S C I D W N R E 1 9173 557 R S L C L A S C D I 1 9174 558 E L G L A E C D I I 1 9175 573 F K T E R K K A T A 1 9176 591 L V L G K H L C I P 1 9177 595 K H L C I P K P F G 1 9178 596 H L G I P K P F G P 1 9179 598 C I P K P F G P I I 1 9180 601 K P F G P I I N G C 1 9181 609 C C C C L E S K V R 1 9182 611 C C L E S K V R S L 1 9183 622 E P L G L H C T F I 1 9184 623 P L G L H C T F I D 1 9185 625 G L H C T F I D D F 1 9186 638 H M L H G S V H C G 1 9187 642 G S V H C C T N V C 1 9188 643 S V H C C T N V C R 1 9189 646 C G T N V C R K P F 1 9190 654 P F S F K W W N H V 1 9191 184PEI2 v.2: HLA Peptide Scoring Results Al 10-mers SYFPEITHI 6 P S T L A P L E V Y 20 9192 4 M T P S T L A P L E 8 9193 7 S T L A P L E V Y V 8 9194 8 T L A P L E V Y V C 7 9195 2 W I M T P S T L A P 6 9196 5 T P S T L A P L E V 6 9197 3 I M T P S T L A P L 4 9198 1 P W I M T P S T L A 2 9199 10 A P L E V Y V C R V 2 9200 184PIE2 v.3: HLA Peptide Scoring Results Al 10-mers SYFPEITHI 10 V P D G K G  F  R M L 16 9201 1 V D E F L S F V P V 14 9202 6 S F V P V P D G K G 8 9203 8 V P V P D G K G F R 5 9204 5 L S F V P V P D G K 4 9205 4 F L S F V P V P D G 3 9206 2 D E F L S F V P V P 2 9207 7 F V P V P D G K G F 2 9208 9 P V P D G K G F R M 1 9209

TABLE XXXVI SEQ. ID Pos 1 2 3 4 5 6 7 8 9 0 score NO. 184P1E2 v.1: HLA Peptide Scoring Results A0201 10- mers SYFPEITHI 263 G L I S F H V T L L 27 9210 560 G L A E C D I I D I 27 9211 2 S L Q R I V R V S L 26 9212 297 I M T P S T L P P L 26 9213 192 A L F D D H K L V L 25 9214 184 V L R T Q G P A A L 24 9215 403 G L D S F G N L E V 24 9216 173 C L Q D L E D M S V 23 9217 176 D L E D M S V M V L 23 9218 17 A V C V A G V E T L 22 9219 301 S T L P P L E V Y V 22 9220 383 R I L G P D F G Y V 22 9221 428 I L I G G N L P G S 22 9222 433 N L P G S S G R R V 22 9223 520 L L E P L G L H C T 22 9224 325 E L A R K A G C K L 21 9225 612 C L E E K V R S L L 21 9226 280 S A S P I F T D T V 20 9227 490 L A S P G A C F K L 20 9228 566 I I D I P Q L F K T 20 9229 582 A F F P D L V N M L 20 9230 590 M L V L G K H L G I 20 9231 611 C C L E E K V R S L 20 9232 20 V A G V E T L V D I 19 9233 103 L P L A Y A V L Y L 19 9234 317 T C F V D A V A E L 19 9235 358 Q A P H K T L P V V 19 9236 384 I L G P D F G Y V T 19 9237 392 V T R S P R D R S V 19 9238 462 F V D W L A V G H V 19 9239 511 A L L F Q G V V D D 19 9240 517 V V D D E Q V K T I 19 9241 14 P T S A V C V A G V 18 9242 106 A Y A V L Y L T C V 18 9243 348 I Q D E M E L G Y V 18 9244 416 V V A N G K E Y P L 18 9245 454 K V Q P P V E L F V 18 9246 465 W L A V G H V D E F 18 9247 466 L A V G H V D E F L 18 9248 522 Q V K T I S I N Q V 18 9249 598 G I P K P F G P I I 18 9250 70 F D A T L E I I V V 17 9251 78 V V M N S P S N D L 17 9252 104 P L A Y A V L Y L T 17 9253 108 A V L Y L T C V D I 17 9254 302 T L P P L S V Y V C 17 9255 436 C S S G R R V T Q V 17 9256 512 L L F Q G V V D D E 17 9257 619 S L L E P L G L H C 17 9258 639 N L H C S V H C G T 17 9259 9 V S L E H P T S A V 16 9260 11 L E H P T S A V C V 16 9261 72 A T L E I I V V N N 16 9262 109 V L Y L T C V D I S 16 9263 110 L Y L T C V D I S L 16 9264 175 Q D L E D M S V H V 16 9265 190 P A A L F D D H K L 16 9266 191 A A L F D D H K L V 16 9267 204 S S Y D A K R A Q V 16 9268 221 D V C E A Y K H V L 16 9269 230 L G Q D K V S Y E V 16 9270 262 T C L I S F H V T L 16 9271 284 I F T D T V V F R V 16 9272 314 R N N T C F V D A V 16 9273 357 V Q A P H K T L P V 16 9274 408 G N L F V S P P V V 16 9275 469 C H V D S F L S F V 16 9276 571 Q L F K T E R K K A 16 9277 606 I I N G C C C L E E 16 9278 24 E T L V D I Y G S V 15 9279 28 D I Y G S V P E G T 15 9280 86 D L N D S H V Q I S 15 9281 111 Y L T C V D I S L D 15 9282 165 D N C D Q H V H C L 15 9283 229 V L G Q D K V S Y E 15 9284 294 A P W I M T P S T L 15 9285 304 P P L S V Y V C R V 15 9286 375 E L Q D F P Y K R I 15 9287 409 N L E V S P P V V A 15 9288 449 F L H A Q K V Q P P 15 9289 450 L H A Q K V Q P P V 15 9290 452 A Q K V Q P P V E L 15 9291 525 T I S I N Q V L S N 15 9292 531 V L S N K D L I N Y 15 9293 546 S C I D W N K S V L 15 9294 558 E L C L A E C D I I 15 9295 586 D L V N M L V L G K 15 9296 625 G L H C T F I D D F 15 9297 630 F I D D F T P Y H M 15 9298 638 H M L H C S V H C G 15 9299 16 S A V C V A C V E T 14 9300 33 V P E G T E M F E V 14 9301 36 C T E M F F V Y G T 14 9302 41 E V Y G T P G V D I 14 9303 65 T R R W R F D A T L 14 9304 68 W R F D A T L S I I 14 9305 114 C V D I S L D C D L 14 9306 118 S L D C D L N C E C 14 9307 149 I L L V N C D R D D 14 9308 162 D V Q D N C D Q H V 14 9309 207 D A K K A Q V F H I 14 9310 216 I C G P S D V C E A 14 9311 226 Y R H V L C Q D K V 14 9312 233 D K V S Y E V P R L 14 9313 253 C L S F P D A G F T 14 9314 255 S F P D A C F T G L 14 9315 333 K L T I C P Q A E N 14 9316 429 L I C C N L P G S S 14 9317 459 V E L F V D W L A V 14 9318 460 E L F V D W L A V C 14 9319 480 A P D G K G F K M L 14 9320 488 M L L A S P G A C F 14 9321 489 L L A S P C A C F K 14 9322 504 Q K C C H G R A L L 14 9323 516 G V V D D E Q V K T 14 9324 527 S I N Q V L S N K D 14 9325 550 W N R S V L K R E L 14 9326 578 K K A T A F F P D L 14 9327 579 K A T A F F P D L V 14 9328 581 T A F F P D L V N M 14 9329 591 L V L G K H L G I P 14 9330 597 L G I P K P F C P I 14 9331 10 S L E H P T S A V C 13 9332 51 Y I S P N M E R G R 13 9333 73 T L E I I V V M N S 13 9334 76 I I V V M N S P S N 13 9335 94 I S Y H S S H E P L 13 9336 96 Y H S S H E P L P L 13 9337 99 S H E P L P L A Y A 13 9338 101 E P L P L A Y A V L 13 9339 142 C P S C Y G C I L L 13 9340 168 D Q H V H C L Q D L 13 9341 179 D M S V M V L R T Q 13 9342 182 V M V L K T Q G P A 13 9343 199 L V L H T S S Y D A 13 9344 242 L H G D S E R F F V 13 9345 245 D E E R F F V E G L 13 9346 270 T L L D D S N E D F 13 9347 271 L L D D S N E D F S 13 9348 299 T P S T L P P L E V 13 9349 367 V F D S P R N G E L 13 9350 395 E P R D K S V S G L 13 9351 407 F G N L E V S P P V 13 9352 419 N G K S Y P L G R I 13 9353 441 R V T Q V V K D F L 13 9354 457 P P V S L F V D W L 13 9355 509 G R A L L F Q C V V 13 9356 587 L V N M L V L C K H 13 9357 604 G P I I N G C C C L 13 9358 617 V R S L L E P L G L 13 9359 635 T P Y H N L H G E V 13 9360 5 R I V R V S L S H P 12 9361 44 C T P C V D I Y I S 12 9362 71 D A T L E I I V V N 12 9363 85 N D L N D S H V Q I 12 9364 100 H E P L P L A Y A V 12 9365 140 V W G P S G Y G G I 12 9366 150 L L V N C D K D D P 12 9367 183 N V L K T Q C P A A 12 9368 200 V L H T S S Y D A K 12 9369 215 H I C C P E D V C E 12 9370 228 H V L G Q D K V S Y 12 9371 241 R L H G D E E R F F 12 9372 260 C F T G L I S F H V 12 9373 281 A S P I F T D T V V 12 9374 283 P I F T D T V V F R 12 9375 288 T V V F R V A P W I 12 9376 293 V A P W I M T P S T 12 9377 327 A R K A C C K L T I 12 9378 345 D R W I Q D E N E L 12 9379 355 G Y V Q A P H K T L 12 9380 421 K E Y P L G R I L I 12 9381 42 P L G R I L I G G N 12 9382 425 L G R I L I C G N L 12 9383 437 S S G R R V T Q V V 12 9384 446 V R D F L H A Q K V 12 9385 535 K D L I N Y N K F V 12 9386 537 L I N Y N K F V Q S 12 9387 545 Q S C I D W N R E V 12 9388 552 K E V L K R F L G L 12 9389 554 V L K R F L G L A F 12 9390 555 L K K E L G L A E C 12 9391 557 K E L C L A E C D I 12 9392 563 E C D I I D I P Q L 12 9393 583 F F P D L V N N L V 12 9394 584 F P D L V N M L V L 12 9395 608 N G C C C L E F K V 12 9396 631 I D D F T P Y H M L 12 9397 6 I V K V S L E H P T 11 9398 18 V C V A C V F T L V 11 9399 25 T L V D I Y G S V P 11 9400 39 M F E V Y G T P G V 11 9401 43 Y G T P C V D I Y I 11 9402 125 C E G K Q D R N F V 11 9403 131 R N F V D K K Q W V 11 9404 143 P S G Y C G I L L V 11 9405 148 G I L L V N C D R D 11 9406 154 C D R D D P S C D V 11 9407 198 K L V L H T S S Y D 11 9408 213 V F H I C G P F D V 11 9409 250 F V F G L S F P D A 11 9410 335 T I C P Q A E N R N 11 9411 339 Q A E N K N D K W I 11 9412 347 W I Q D E N E L G Y 11 9413 362 K T L P V V F D S P 11 9414 376 L Q D F P Y K R I L 11 9415 401 V S G L D S F C N L 11 9416 423 Y P L G R I L I G C 11 9417 427 R I L I G G N L P G 11 9418 47 F L S F V P A P D G 11 9419 487 R N L L A S P G A C 11 9420 498 K L F Q E K Q K C C 11 9421 503 K Q K C G H G R A L 11 9422 508 H G R A L L F Q G V 11 9423 514 F Q C V V D D E Q V 11 9424 528 I N Q V L S N K D L 11 9425 536 D L I N Y N K F V Q 11 9426 553 E V L K R E L G L A 11 9427 565 D I I D I P Q L F K 11 9428 588 V N M L V L G K H L 11 9429 589 N M L V L C K H L C 11 9430 592 V L G K H L C I P K 11 9431 596 H L G I P K P F G P 11 9432 615 E K V K S L L F P L 11 9433 8 K V S L E H P T S A 10 9434 47 C V D I Y I S P N M 10 9435 49 D I Y I S P N N E R 10 9436 67 R W K F D A T L E I 10 9437 69 R F D A T L F I I V 10 9438 79 V M N S P S N D L N 10 9439 93 Q I S Y H S S H E P 10 9440 105 L A Y A V L Y L T C 10 9441 117 I S L D C D L N C F 10 9442 122 D L N C F G R Q D K 10 9443 141 W G P S C Y C C I L 10 9444 144 S G Y G G I L L V N 10 9445 194 F D D H K L V L H T 10 9446 261 F T G L I S F H V T 10 9447 26 L I S F H V T L L D 10 9448 269 V T L L D D S N E D 10 9449 275 S N E D F S A S P I 10 9450 289 V V F R V A P W I M 10 9451 296 W I M T P S T L P P 10 9452 311 C R V R N N T C F V 10 9453 322 A V A F L A R K A G 10 9454 354 L G Y V Q A P H K T 10 9455 363 T L P V V F D S P R 10 9456 444 Q V V K D F L H A Q 10 9457 484 K G F K M L L A S P 10 9458 523 V K T I S I N Q V L 10 9459 547 C I D W N R E V L K 10 9460 548 I D W N R E V L K R 10 9461 573 F K T E R K K A T A 10 9462 601 K P F G P I I N G C 10 9463 634 F T P Y H M L H G E 10 9464 19 C V A G V E T L V D 9 9465 27 V D I Y G S V P E G 9 9466 83 P S N D L N D S H V 9 9467 97 H S S H F P L P L A 9 9468 102 P L P L A Y A V L Y 9 9469 139 W V W G P S G Y G G 9 9470 145 C Y C C I L L V N C 9 9471 171 V H C L Q D L E D M 9 9472 193 L F D D H K L V L H 9 9473 210 R A Q V F H I C G P 9 9474 256 F P D A G F T C L I 9 9475 285 F T D T V V F R V A 9 9476 287 D T V V F R V A P W 9 9477 309 Y V C R V R N N T C 9 9478 320 V D A V A E L A R K 9 9479 321 D A V A E L A R K A 9 9480 326 L A R K A G C K L T 9 9481 351 F H F L C Y V Q A P 9 9482 366 V V F D S P R N G E 9 9483 400 S V S G L D S F G N 9 9484 410 L E V S P P V V A N 9 9485 411 F V S P P V V A N G 9 9486 417 V A N C K F Y P L C 9 9487 420 C K E Y P L G R I L 9 9488 524 K T I S T N Q V L S 9 9489 538 I N Y N K F V Q S C 9 9490 539 N Y N K F V Q S C I 9 9491 561 L A F C D I I D I P 9 9492 568 D I P Q L F K T E R 9 9493 622 E P L C L H C T F I 9 9494 641 H G E V H C G T N V 9 9495 21 A G V E T L V D I Y 8 9496 26 L V D I Y C S V P E 8 9497 30 Y G S V P F C T E M 8 9498 32 S V P E C T E M F E 8 9499 38 E M F E V Y G T P G 8 9500 55 N H F R C R E R A D 8 9501 56 N E R C R E R A D T 8 9502 64 D T R R W R F D A T 8 9503 116 D I S L D C D L N C 8 9504 181 S V M V L R T Q G P 8 9505 212 Q V F H I C G P E D 8 9506 258 D A G F T G L I S F 8 9507 265 I S F H V T L L D D 8 9508 272 L D D S N E D F S A 8 9509 292 R V A P W I M T P S 8 9510 313 V R N N T C F V D A 8 9511 328 R K A G C K L T I C 8 9512 334 L T I C P Q A F N R 8 9513 350 D E N E L G Y V Q A 8 9514 445 V V R D F L H A Q K 8 9515 486 F R N L L A S P G A 8 9516 510 R A L L F Q G V V D 8 9517 519 D D E Q V K T I S I 8 9518 526 I S I N Q V L S N K 8 9519 529 N Q V L S N K D L I 8 9520 532 L S N K D L I N Y N 8 9521 580 A T A F F P D L V N 8 9522 593 L G K H L G I P K P 8 9523 607 I N G C C C L E E K 8 9524 74 L E I I V V M N S P 7 9525 75 F I I V V M N S P S 7 9526 112 L T C V D I S L D C 7 9527 133 F V D K R Q W V W G 7 9528 146 Y G C I L L V N C D 7 9529 151 L V N C D R D D P S 7 9530 170 H V H C L Q D L E D 7 9531 178 F D M S V N V L R T 7 9532 186 R T Q C P A A L F D 7 9533 202 H T S S Y D A K R A 7 9534 220 F D V C F A Y R H V 7 9535 223 C E A Y R H V L G Q 7 9536 236 S Y E V P R L H G D 7 9537 254 L S F P D A G F T G 7 9538 259 A G F T C L I S F H 7 9539 279 F S A S P I F T D T 7 9540 291 F R V A P W I N T P 7 9541 319 F V D A V A F L A R 7 9542 323 V A F L A R K A G C 7 9543 353 F L G Y V Q A P H K 7 9544 385 L G P D F G Y V T R 7 9545 439 G R R V T Q V V R D 7 9546 455 V Q P P V E L F V D 7 9547 481 P D G K G F R M L L 7 9548 506 C G H G R A L L F Q 7 9549 530 Q V L S N K D L I N 7 9550 567 I D I P Q L F K T F 7 9551 605 P I I N G C C C L E 7 9552 623 P L G L H C T F I D 7 9553 644 V H C G T N V C R K 7 9554 647 C T N V C R K P F S 7 9555 654 P F S F K W W N M V 7 9556 1 M S L Q R I V R V S 6 9557 3 L Q R I V R V S L E 6 9558 23 V E T L V D I Y G S 6 9559 77 I V V M N S P S N D 6 9560 91 H V Q I S Y H S S H 6 9561 98 S S H E P L P L A Y 6 9562 107 Y A V L Y L T C V D 6 9563 128 R Q D R N F V D K R 6 9564 174 L Q D L E D M S V M 6 9565 187 T Q G P A A L F D D 6 9566 195 D D H K L V L H T S 6 9567 206 Y D A K R A Q V F H 6 9568 224 E A Y R H V L G Q D 6 9569 244 C D E F R F F V E G 6 9570 266 S F H V T L L D D S 6 9571 274 D S N F D F S A S P 6 9572 305 P L F V Y V C R V R 6 9573 307 F V Y V C R V R N N 6 9574 308 V Y V C R V R N N T 6 9575 316 N T C F V D A V A E 6 9576 330 A G C K L T I C P Q 6 9577 342 N R N D R W I Q D F 6 9578 343 R N D R W I Q D E M 6 9579 352 M E L G Y V Q A P H 6 9580 356 Y V Q A P H K T L P 6 9581 370 S P K N C E L Q D F 6 9582 374 C E L Q D F P Y R K 6 9583 379 F P Y K R I L G P D 6 9584 402 S G L D S F C N L E 6 9585 405 D S F G N L E V S P 6 9586 406 S F G N L F V S P P 6 9587 434 L P C S S G R R V T 6 9588 461 L F V D W L A V G H 6 9589 467 A V G H V D E F L S 6 9590 470 H V D E F L S F V P 6 9591 472 D E F L S F V P A P 6 9592 476 S F V P A P D G K C 6 9593 479 P A P D C K G F R M 6 9594 483 G K G F R M L L A S 6 9595 494 C A C F K L F Q E K 6 9596 513 L F Q G V V D D E Q 6 9597 595 K H L G I P K P F C 6 9598 616 K V R S L L F P L C 6 9599 618 R S L L E P L G L H 6 9600 626 L H C T F I D D F T 6 9601 640 L H G E V H C G T N 6 9602 653 K P F S F K W W N M 6 9603 4 Q R I V R V S L E H 5 9604 12 E H P T S A V C V A 5 9605 42 V Y G T P G V D I Y 5 9606 53 S P N M E R G R E R 5 9607 63 A D T R R W R F D A 5 9608 81 N S P S N D L N D S 5 9609 90 S H V Q I S Y H S S 5 9610 113 T C V D I S L D C D 5 9611 134 V D K R Q W V W G P 5 9612 152 V N C D R D D P S C 5 9613 201 L H T S S Y D A K R 5 9614 235 V S Y E V P R L H G 5 9615 248 R F F V F C L S F P 5 9616 278 D F S A S P I F T D 5 9617 282 S P I F T D T V V F 5 9618 290 V F R V A P W I M T 5 9619 298 M T P S T L P P L E 5 9620 315 N N T C F V D A V A 5 9621 318 C F V D A V A E L A 5 9622 329 K A G C K L T I C P 5 9623 331 G C K L T I C P Q A 5 9624 391 Y V T R F P R D R S 5 9625 398 D R S V S G L D S F 5 9626 40 L D S F G N L F V S 5 9627 412 V S P P V V A N G K 5 9628 432 C N L P C S S C R R 5 9629 442 V T Q V V R D F L H 5 9630 443 T Q V V K D F L H A 5 9631 451 H A Q K V Q P P V F 5 9632 471 V D E F L S F V P A 5 9633 477 F V P A P D G K G F 5 9634 478 V P A P D C K G F K 5 9635 482 D G K C F R M L L A 5 9636 495 A C F K L F Q E K Q 5 9637 499 L F Q E K Q K C G H 5 9638 507 C H C R A L L F Q C 5 9639 542 K F V Q S C I D W N 5 9640 543 F V Q S C I D W N R 5 9641 572 L F K T E R K K A T 5 9642 574 K T F R K K A T A F 5 9643 585 P D L V N N L V L G 5 9644 628 C T F I D D F T P Y 5 9645 637 Y H M L H G E V H C 5 9646 7 V R V S L E H P T S 4 9647 22 G V E T L V D T Y G 4 9648 29 I Y G S V P E G T E 4 9649 50 I Y I S P N M E R G 4 9650 54 P N M E R C R H R A 4 9651 62 R A D T R R W R F D 4 9652 82 S P S N D L N D S H 4 9653 87 L N D S H V Q I S Y 4 9654 88 N D S H V Q I S Y H 4 9655 119 L D C D L N C E G R 4 9656 123 L N C H C R Q D R N 4 9657 127 C R Q D R N F V D K 4 9658 136 K R Q W V W G P S C 4 9659 156 R D D P S C D V Q D 4 9660 177 L E D M S V M V L R 4 9661 197 H K L V L H T S S Y 4 9662 234 K V S Y E V P R L H 4 9663 237 Y E V P R L H G D E 4 9664 303 L P P L H V Y V C R 4 9665 312 R V R N N T C F V D 4 9666 324 A E L A R K A G C K 4 9667 359 A P H K T L P V V F 4 9668 378 D F P Y K R I L G P 4 9669 382 K R I L C P D F G Y 4 9670 386 G P D F C Y V T R H 4 9671 394 R E P R D R S V S C 4 9672 413 S P P V V A N G K H 4 9673 418 A N G K E Y P L G R 4 9674 426 C R I L I G C N L P 4 9675 430 I G C N L P G S S G 4 9676 438 S G R R V T Q V V R 4 9677 440 R R V T Q V V R D F 4 9678 453 Q K V Q P P V E L F 4 9679 458 P V E L F V D W L A 4 9680 468 V G H V D E F L S F 4 9681 475 L S F V P A P D G K 4 9682 497 F K L F Q E K Q K C 4 9683 559 L G L A E C D I I D 4 9684 621 L E P L G L H C T F 4 9685 624 L G L H C T F I D D 4 9686 629 T F I D D F T P Y H 4 9687 649 N V C R K P F S F K 4 9688 31 C S V P E C T E M F 3 9689 48 V D I Y I S P N M E 3 9690 80 N N S P S N D L N D 3 9691 84 S N D L N D S H V Q 3 9692 92 V Q I S Y H S S H E 3 9693 95 S Y H S S H E P L P 3 9694 115 V D I S L D C D L N 3 9695 147 G G I L L V N C D R 3 9696 157 D D P S C D V Q D N 3 9697 164 Q D N C D Q H V H C 3 9698 185 L R T Q C P A A L F 3 9699 189 C P A A L F D D H K 3 9700 208 A K R A Q V F H I C 3 9701 209 K R A Q V F H I C C 3 9702 21 F H I C G P E D V C 3 9703 217 C G P E D V C E A Y 3 9704 218 C P H D V C E A Y R 3 9705 238 E V P R L H C D E E 3 9706 239 V P R L H G D E E R 3 9707 249 F F V E G L S F P D 3 9708 267 F H V T L L D D S N 3 9709 268 H V T L L D D S N H 3 9710 306 L E V Y V C R V R N 3 9711 332 C K L T I C P Q A E 3 9712 340 A E N R N D R W I Q 3 9713 361 H K T L P V V F D S 3 9714 364 L P V V F D S P R N 3 9715 368 F D S P R N G H L Q 3 9716 377 Q D F P Y K R I L G 3 9717 389 F G Y V T R E P R D 3 9718 431 C G N L P C S S G R 3 9719 448 D F L H A Q K V Q P 3 9720 463 V D W L A V G H V D 3 9721 464 D W L A V G H V D E 3 9722 491 A S P C A C F K L F 3 9723 492 S P G A C F K L F Q 3 9724 493 P G A C F K L F Q E 3 9725 518 V D D E Q V K T I S 3 9726 520 D E Q V K T I S I N 3 9727 533 S N K D L I N Y N K 3 9728 534 N K D L I N Y N K F 3 9729 549 D W N R E V L K R E 3 9730 562 A E C D I I D I P Q 3 9731 599 I P K P F G P I I N 3 9732 614 H E K V R S L L E P 3 9733 643 E V H C G T N V C R 3 9734 650 V C R K P F S F K W 3 9735 13 H P T S A V C V A G 2 9736 15 T S A V C V A G V E 2 9737 37 T E M F E V Y G T P 2 9738 45 T P C V D I Y I S P 2 9739 46 P G V D I Y I S P N 2 9740 52 I S P N M E R G R E 2 9741 58 R G R E R A D T R R 2 9742 121 C D L N C E G R Q D 2 9743 137 R Q W V W G P S G Y 2 9744 160 S C D V Q D N C D Q 2 9745 163 V Q D N C D Q H V H 2 9746 172 H C L Q D L E D N S 2 9747 205 S Y D A K R A Q V F 2 9748 222 V C H A Y R H V L G 2 9749 225 A Y R H V L G Q D K 2 9750 243 H G D E E R F F V E 2 9751 251 V E G L S F P D A G 2 9752 252 H G L S F P D A G F 2 9753 257 P D A G F T C L I S 2 9754 277 H D F S A S P I F T 2 9755 336 I C P Q A H N K N D 2 9757 346 K W I Q D H M E L G 2 9758 360 P H K T L P V V F D 2 9759 372 R N G H L Q D F P Y 2 9760 381 Y K R I L C P D F G 2 9761 387 P D F C Y V T K E P 2 9762 422 E Y P L G R I L I C 2 9763 456 Q P P V H L F V D W 2 9764 505 K C C H G R A L L F 2 9765 544 V Q S C I D W N R H 2 9766 564 C D I I D I P Q L F 2 9767 569 I P Q L F K T E R K 2 9768 575 T E R K K A T A F F 2 9769 610 C C C L E E K V R S 2 9770 613 L E H K V R S L L E 2 9771 642 C E V H C C T N V C 2 9772 645 H C G T N V C K K P 2 9773 648 T N V C K K P F S F 2 9774 655 F S F K W W N M V P 2 9775 66 R R W K F D A T L H 1 9776 124 N C H C R Q D R N F 1 9777 132 N F V D K K Q W V W 1 9778 167 C D Q H V H C L Q D 1 9779 211 A Q V F H I C C P E 1 9780 231 G Q D K V S Y E V P 1 9781 232 Q D K V S Y E V P R 1 9782 310 V C R V R N N T C F 1 9783 337 C P Q A E N R N D R 1 9784 338 P Q A E N R N D R W 1 9785 390 G Y V T R E P R D R 1 9786 393 T R H P R D R S V S 1 9787 397 R D R S V S G L D S 1 9788 415 P V V A N G K H Y P 1 9789 435 P G S S G R R V T Q 1 9790 473 E F L S F V P A P D 1 9791 485 G F R M L L A S P G 1 9792 501 Q E K Q K C G H G R 1 9793 502 E K Q K C G H G R A 1 9794 541 N K F V Q S C I D W 1 9795 603 F G P I I N G C C C 1 9796 633 D F T P Y H M L H G 1 9797 57 H R G R E R A D T R −1 9798 120 D C D L N C E G R Q −1 9799 129 Q D R N F V D K R Q −1 9800 130 D R N F V D K R Q W −1 9801 158 D P S C D V Q D N C −1 9803 159 P S C D V Q D N C D −1 9804 227 R H V L G Q D K V S −1 9805 240 P R L H C D H E R F −1 9806 295 P W I M T P S T L P −1 9807 551 N R E V L K R E L C −1 9808 577 K K K A T A F F P D −1 9809 602 P F G P I I N C C C −1 9810 652 K K P F S F K W W N −1 9811 219 P E D V C E A Y R H −2 9812 388 D F C Y V T R E P R −2 9813 414 P P V V A N G K E Y −2 9814 496 C F K L F Q E K Q K −2 9815 646 C G T N V C R K P F −2 9816 34 P E G T E M F H V Y −3 9817 126 E G K Q D R N F V D −3 9818 341 E N R N D K W I Q D −3 9819 380 P Y K R I L C P D F −3 9820 396 P R D R S V S G L D −3 9821 521 E Q V K T I S I N Q −3 9822 636 P Y H N L H C H V H −3 9823 246 E E R F F V E G L S −4 9824 576 E R K K A T A F F P −4 9825 184P1E2 v.2: HLA Peptide Scoring Results A0201 10- mers SYFPEAITHI 3 I M T P S T L A P L 27 9826 7 S T L A P L E V Y V 20 9827 10 A P L E V Y V C R V 20 9828 8 T L A P L E V Y V C 19 9829 5 T P S T L A P L E V 13 9830 2 W I M T P S T L A P 11 9831 9 L A P L E V Y V C R 8 9832 4 M T P S T L A P L E 5 9833 1 P W I M T P S T L A 3 9834 184P1E2 v.3: HLA Peptide Scoring Results A0201 10- mers SYFPEAITHI 4 F L S F V P V P D G 15 10 V P D G K G F R M L 13 1 V D E F L S F V P V 11 6 S F V P V P D G K G 6 9 P V P D G K G F R M 6 2 D E F L S F V P V P 5 7 F V P V P D G K G F 5 5 L S F V P V P D G K 4 8 V P V P D G K G F R 3 3 E F L S F V P V P D 1

TABLE XXXVII SEQ. Pos 1 2 3 4 5 6 7 8 9 0 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results A0202 10-mers SYFPEITHI 190 P A A L F D D H K L 5 9835 106 A Y A V L Y L T C V 4 9836 322 A V A E L A R K A G 4 9837 580 A T A F F P D L V N 4 9838 15 T S A V C V A G V E 3 9839 19 C V A G V E T L V D 3 9840 61 E R A D T R R W R F 3 9841 70 F D A T L E I I V V 3 9842 104 P L A Y A V L Y T L 3 9843 189 G P A A L F D D H K 3 9844 191 A A L F D D H K L V 3 9845 206 Y D A K R A Q V F H 3 9846 209 K R A Q V F H I C G 3 9847 223 C E A Y R H V L G Q 3 9848 257 P D A G F T G L I S 3 9849 279 F S A S P I F T D T 3 9850 292 R V A P W I M T P S 3 9851 320 V D A V A E L A R K 3 9852 325 E L A R K A G C K L 3 9853 328 R K A G C K L T I C 3 9854 338 P Q A E N R N D R W 3 9855 357 V Q A P H K T L P V 3 9856 416 V V A N G K E Y P L 3 9857 450 L H A Q K V Q P P V 3 9858 465 W L A V G H V D E F 3 9859 478 V P A P D G K G F R 3 9860 489 L L A S P G A C F K 3 9861 493 P G A C F K L F Q E 3 9862 509 G R A L L F Q G V V 3 9863 560 G L A E C D I I D I 3 9864 578 K K A T A F F P D L 3 9865 16 S A V C V A G V E T 2 9866 20 V A G V E T L V D I 2 9867 62 R A D T R R W R F D 2 9868 71 D A T L E I I V V M 2 9869 105 L A Y A V L Y L T C 2 9870 107 Y A V L Y L T C V D 2 9871 207 D A K R A Q V F H I 2 9872 210 R A Q V F H I C G P 2 9873 224 E A Y R H V L G Q D 2 9874 258 D A G F T G L I S F 2 9875 280 S A S P I F T D T V 2 9876 293 V A P W I M T P S T 2 9877 321 D A V A E L A R K A 2 9878 323 V A E L A R K A G C 2 9879 326 L A R K A G C K L T 2 9880 329 K A G C K L T I C P 2 9881 339 Q A E N R N D R W I 2 9882 358 Q A P H K T L P V V 2 9883 417 V A N G K E Y P L G 2 9884 451 H A Q K V Q P P V E 2 9885 466 L A V G H V D E F L 2 9886 479 P A P D G K G F R M 2 9887 490 L A S P G A C F K L 2 9888 494 G A C F K L F Q E K 2 9889 510 R A L L F Q G V V D 2 9890 561 L A E C D I I D I P 2 9891 579 K A T A F F P D L V 2 9892 581 T A F F P D L V N M 2 9893 17 A V C V A G V E T L 1 9894 21 A G V E T L V D I Y 1 9895 63 A D T R R W R F D A 1 9896 72 A T L E I I V V M N 1 9897 108 A V L Y L T C V D I 1 9898 192 A L F D D H K L V L 1 9899 208 A K R A Q V F H I C 1 9900 211 A Q V F H I C G P E 1 9901 225 A Y R H V L G Q D K 1 9902 259 A G F T G L I S F H 1 9903 281 A S P I F T D T V V 1 9904 294 A P W I M T P S T L 1 9905 324 A E L A R K A G C K 1 9906 327 A R K A G C K L T I 1 9907 330 A G C K L T I C P Q 1 9908 340 A E N R N D R W I Q 1 9909 359 A P H K T L P V V F 1 9910 418 A N G K E Y P L G R 1 9911 452 A Q K V Q P P V E L 1 9912 467 A V G H V D E F L S 1 9913 480 A P D G K G F R M L 1 9914 491 A S P G A C F K L F 1 9915 495 A C F K L F Q E K Q 1 9916 511 A L L F Q G V V D D 1 9917 562 A E C D I I D I P Q 1 9918 582 A F F P D L V N M L 1 9919 184P1E2 v.2: HLA Peptide Scoring Results A0202 10-mers SYFPEITHI 8 T L A P L E V Y V C 3 9920 9 L A P L E V Y V C R 2 9921 10 A P L E V Y V C R V 1 9922

TABLE XXXVIII SEQ. Pos 1 2 3 4 5 6 7 8 9 0 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results A0203 10-mers SYFPEITHI 183 M V L R T Q G P A A 19 9923 99 S H E P L P L A Y A 18 9924 315 N N T C F V D A V A 18 9925 573 F K T E R K K A T A 18 9926 184 V L R T Q G P A A L 17 9927 8 R V S L E H P T S A 10 9928 12 E H P T S A V C V A 10 9929 54 P N M E R G R E R A 10 9930 63 A D T R R W R F D A 10 9931 97 H S S H E P L P L A 10 9932 182 V M V L R T Q G P A 10 9933 199 L V L H T S S Y D A 10 9934 202 H T S S Y D A K R A 10 9935 216 I C G P E D V C E A 10 9936 250 F V E G L S F P D A 10 9937 272 L D D S N E D F S A 10 9938 285 F T D T V V F R V A 10 9939 313 V R N N T C F V D A 10 9940 318 C F V D A V A E L A 10 9941 321 D A V A E L A R K A 10 9942 331 G C K L T I C P Q A 10 9943 350 D E M E L G Y V Q A 10 9944 409 N L E V S P P V V A 10 9945 443 T Q V V R D F L H A 10 9946 458 P V E L F V D W L A 10 9947 471 V D E F L S F V P A 10 9948 482 D G K G F R M L L A 10 9949 486 F R M L L A S P G A 10 9950 502 E K Q K C G H G R A 10 9951 553 E V L K R E L G L A 10 9952 571 Q L F K T E R K K A 10 9953 9 V S L E H P T S A V 9 9954 13 H P T S A V C V A G 9 9955 55 N M E R G R E R A D 9 9956 64 D T R R W R F D A T 9 9957 98 S S H E P L P L A Y 9 9958 100 H E P L P L A Y A V 9 9959 200 V L H T S S Y D A K 9 9960 203 T S S Y D A K R A Q 9 9961 217 C G P E D V C E A Y 9 9962 251 V E G L S F P D A G 9 9963 273 D D S N E D F S A S 9 9964 286 T D T V V F R V A P 9 9965 314 R N N T C F V D A V 9 9966 316 N T C F V D A V A E 9 9967 319 F V D A V A E L A R 9 9968 322 A V A E L A R K A G 9 9969 332 C K L T I C P Q A E 9 9970 351 E M E L G Y V Q A P 9 9971 410 L E V S P P V V A N 9 9972 444 Q V V R D F L H A Q 9 9973 459 V E L F V D W L A V 9 9974 472 D E F L S F V P A P 9 9975 483 G K G F R M L L A S 9 9976 487 R M L L A S P G A C 9 9977 503 K Q K C G H G R A L 9 9978 554 V L K R E L G L A E 9 9979 572 L F K T E R K K A T 9 9980 574 K T E R K K A T A F 9 9981 10 S L E H P T S A V C 8 9982 14 P T S A V C V A G V 8 9983 56 M E R G R E R A D T 8 9984 65 T R R W R F D A T L 8 9985 101 E P L P L A Y A V L 8 9986 185 L R T Q G P A A L F 8 9987 201 L H T S S Y D A K R 8 9988 204 S S Y D A K R A Q V 8 9989 218 G P E D V C E A Y R 8 9990 252 E G L S F P D A G F 8 9991 274 D S N E D F S A S P 8 9992 287 D T V V F R V A P W 8 9993 317 T C F V D A V A E L 8 9994 320 V D A V A E L A R K 8 9995 323 V A E L A R K A G C 8 9996 333 K L T I C P Q A E N 8 9997 352 M E L G Y V Q A P H 8 9998 411 E V S P P V V A N G 8 9999 445 V V R D F L H A Q K 8 10000 460 E L F V D W L A V G 8 10001 473 E F L S F V P A P D 8 10002 484 K G F R M L L A S P 8 10003 488 M L L A S P G A C F 8 10004 504 Q K C G H G R A L L 8 10005 555 L K R E L G L A E C 8 10006 575 T E R K K A T A F F 8 10007 184P1E2 v.2: HLA Peptide Scoring Results A0203 10-mers SYFPEITHI 1 P W I M T P S T L A 10 10008 2 W I M T P S T L A P 9 10009 3 I M T P S T L A P L 8 10010

TABLE XXXIX SEQ. Pos 1 2 3 4 5 6 7 8 9 0 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results A3 10-mers SYFPEITHI 445 V V  R D F L H A Q K 30 10011 228 H V  L G Q D K V S Y 26 10012 649 N V  C R K P F S F K 26 10013 565 D I  I D I P Q L F K 25 10014 102 P L  P L A Y A V L Y 24 10015 488 M L  L A S P G A C F 24 10016 489 L L  A S P G A C F K 24 10017 586 D L  V N M L V L G K 24 10018 41 E V  Y G T P G V D I 23 10019 353 E L  G Y V Q A P H K 23 10020 592 V L  G K H L G I P K 23 10021 312 R V  R N N T C F V D 22 10022 384 I L  G P D F G Y V T 22 10023 547 C I  D W N R E V L K 22 10024 2 S L  Q R I V R V S L 21 10025 25 T L  V D I Y G S V P 21 10026 192 A L  F D D H K L V L 21 10027 200 V L  H T S S Y D A K 21 10028 324 A E  L A R K A G C K 21 10029 554 V L  K R E L G L A E 21 10030 19 C V  A G V E T L V D 20 10031 91 H V  Q I S Y H S S H 20 10032 241 R L  H G D E E R F F 20 10033 319 F V  D A V A E L A R 20 10034 619 S L  L E P L G L H C 20 10035 8 R V  S L E H P T S A 19 10036 108 A V  L Y L T C V D I 19 10037 183 M V  L R T Q G P A A 19 10038 225 A Y  R H V L G Q D K 19 10039 292 R V  A P W I M T P S 19 10040 409 N L  E V S P P V V A 19 10041 438 S G  R R V T Q V V R 19 10042 454 K V  Q P P V E L F V 19 10043 477 F V  P A P D G K G F 19 10044 511 A L  L F Q G V V D D 19 10045 526 I S  I N Q V L S N K 19 10046 10 S L  E H P T S A V C 18 10047 49 D I  Y I S P N M E R 18 10048 184 V L  R T Q G P A A L 18 10049 234 K V  S Y E V P R L H 18 10050 305 P L  E V Y V C R V R 18 10051 347 W I  Q D E M E L G Y 18 10052 427 R I  L I G G N L P G 18 10053 510 R A  L L F Q G V V D 18 10054 536 D L  I N Y N K F V Q 18 10055 643 E V  H C G T N V C R 18 10056 17 A V  C V A G V E T L 17 10057 198 K L  V L H T S S Y D 17 10058 270 T L  L D D S N E D F 17 10059 302 T L  P P L E V Y V C 17 10060 309 Y V  C R V R N N T C 17 10061 322 A V  A E L A R K A G 17 10062 325 E L  A R K A G C K L 17 10063 333 K L  T I C P Q A E N 17 10064 363 T L  P V V F D S P R 17 10065 383 R I  L G P D F G Y V 17 10066 428 I L  I G G N L P G S 17 10067 460 E L  F V D W L A V G 17 10068 530 Q V  L S N K D L I N 17 10069 531 V L  S N K D L I N Y 17 10070 77 I V  V M N S P S N D 16 10071 176 D L  E D M S V M V L 16 10072 221 D V  C E A Y R H V L 16 10073 238 E V  P R L H G D E E 16 10074 282 S P  I F T D T V V F 16 10075 283 P I  F T D T V V F R 16 10076 359 A P  H K T L P V V F 16 10077 411 E V  S P P V V A N G 16 10078 412 V S  P P V V A N G K 16 10079 444 Q V  V R D F L H A Q 16 10080 515 Q G  V V D D E Q V K 16 10081 522 Q V  K T I S I N Q V 16 10082 616 K V  R S L L E P L G 16 10083 5 R I  V R V S L E H P 15 10084 6 I V  R V S L E H P T 15 10085 26 L V  D I Y G S V P E 15 10086 28 D I  Y G S V P E G T 15 10087 51 Y I  S P N M E R G R 15 10088 60 R E  R A D T R R W R 15 10089 109 V L  Y L T C V D I S 15 10090 122 D L  N C E G R Q D R 15 10091 127 G R  Q D R N F V D K 15 10092 133 F V  D K R Q W V W G 15 10093 139 W V  W G P S G Y G G 15 10094 212 Q V  F H I C G P E D 15 10095 433 N L  P G S S G R R V 15 10096 441 R V  T Q V V R D F L 15 10097 465 W L  A V G H V D E F 15 10098 470 H V  D E F L S F V P 15 10099 496 C F  K L F Q E K Q K 15 10100 516 G V  V D D E Q V K T 15 10101 517 V V  D D E Q V K T I 15 10102 537 L I  N Y N K F V Q S 15 10103 574 K T  E R K K A T A F 15 10104 587 L V  N M L V L G K H 15 10105 591 L V  L G K H L G I P 15 10106 606 I I  N G C C C L E E 15 10107 612 C L  E E K V R S L L 15 10108 57 E R  G R E R A D T R 14 10109 75 E I  I V V M N S P S 14 10110 137 R Q  W V W G P S G Y 14 10111 144 S G  Y G G I L L V N 14 10112 149 I L  L V N C D R D D 14 10113 156 R D  D P S C D V Q D 14 10114 173 C L  Q D L E D M S V 14 10115 205 S Y  D A K R A Q V F 14 10116 215 H I  C G P E D V C E 14 10117 253 G L  S F P D A G F T 14 10118 263 G L  I S F H V T L L 14 10119 268 H V  T L L D D S N E 14 10120 288 T V  V F R V A P W I 14 10121 289 V V  F R V A P W I M 14 10122 307 E V  Y V C R V R N N 14 10123 320 V D  A V A E L A R K 14 10124 391 Y V  T R E P R D R S 14 10125 424 P L  G R I L I G G N 14 10126 429 L I  G G N L P G S S 14 10127 525 T I  S I N Q V L S N 14 10128 543 F V  Q S C I D W N R 14 10129 590 M L  V L G K H L G I 14 10130 625 G L  H C T F I D D F 14 10131 32 S V  P E G T E M F E 13 10132 58 R G  R E R A D T R R 13 10133 98 S S  H E P L P L A Y 13 10134 105 L A  Y A V L Y L T C 13 10135 111 Y L  T C V D I S L D 13 10136 170 H V  H C L Q D L E D 13 10137 189 G P  A A L F D D H K 13 10138 197 H K  L V L H T S S Y 13 10139 204 S S  Y D A K R A Q V 13 10140 229 V L  G Q D K V S Y E 13 10141 327 A R  K A G C K L T I 13 10142 356 Y V  Q A P H K T L P 13 10143 382 K R  I L G P D F G Y 13 10144 385 L G  P D F G Y V T R 13 10145 394 R E  P R D R S V S G 13 10146 397 R D  R S V S G L D S 13 10147 400 S V  S G L D S F G N 13 10148 403 G L  D S F G N L E V 13 10149 467 A V  G H V D E F L S 13 10150 474 F L  S F V P A P D G 13 10151 498 K L  F Q E K Q K C G 13 10152 505 K C  G H G R A L L F 13 10153 533 S N  K D L I N Y N K 13 10154 553 E V  L K R E L G L A 13 10155 568 D I  P Q L F K T E R 13 10156 569 I P  Q L F K T E R K 13 10157 571 Q L  F K T E R K K A 13 10158 620 L L  E P L G L H C T 13 10159 4 Q R  I V R V S L E H 12 10160 73 T L  E I I V V M N S 12 10161 76 I I  V V M N S P S N 12 10162 101 E P  L P L A Y A V L 12 10163 116 D I  S L D C D L N C 12 10164 150 L L  V N C D R D D P 12 10165 186 R T  Q G P A A L F D 12 10166 199 L V  L H T S S Y D A 12 10167 247 E R  F F V E G L S F 12 10168 250 F V  E G L S F P D A 12 10169 294 A P  W I M T P S T L 12 10170 366 V V  F D S P R N G E 12 10171 415 P V  V A N G K E Y P 12 10172 416 V V  A N G K E Y P L 12 10173 449 F L  H A Q K V Q P P 12 10174 461 L F  V D W L A V G H 12 10175 560 G L  A E C D I I D I 12 10176 567 I D  I P Q L F K T E 12 10177 570 P Q  L F K T E R K K 12 10178 596 H L  G I P K P F G P 12 10179 605 P I  I N G C C C L E 12 10180 607 I N  G C C C L E E K 12 10181 618 R S  L L E P L G L H 12 10182 639 M L  H G E V H C G T 12 10183 644 V H  C G T N V C R K 12 10184 47 G V  D I Y I S P N M 11 10185 66 R R  W R F D A T L E 11 10186 72 A T  L E I I V V M N 11 10187 78 V V  M N S P S N D L 11 10188 86 D L  N D S H V Q I S 11 10189 104 P L  A Y A V L Y L T 11 10190 114 C V  D I S L D C D L 11 10191 118 S L  D C D L N C E G 11 10192 128 R Q  D R N F V D K R 11 10193 148 G I  L L V N C D R D 11 10194 162 D V  Q D N C D Q H V 11 10195 181 S V  M V L R T Q G P 11 10196 224 E A  Y R H V L G Q D 11 10197 232 Q D  K V S Y E V P R 11 10198 262 T G  L I S F H V T L 11 10199 264 L I  S F H V T L L D 11 10200 271 L L  D D S N E D F S 11 10201 296 W I  M T P S T L P P 11 10202 300 P S  T L P P L E V Y 11 10203 335 T I  C P Q A E N R N 11 10204 352 M E  L G Y V Q A P H 11 10205 365 P V  V F D S P R N G 11 10206 372 R N  G E L Q D F P Y 11 10207 373 N G  E L Q D F P Y K 11 10208 375 E L  Q D F P Y K R I 11 10209 380 P Y  K R I L G P D F 11 10210 393 T R  E P R D R S V S 11 10211 418 A N  G K E Y P L G R 11 10212 421 K E  Y P L G R I L I 11 10213 430 I G  G N L P G S S G 11 10214 458 P V  E L F V D W L A 11 10215 462 F V  D W L A V G H V 11 10216 475 L S  F V P A P D G K 11 10217 484 K G  F R M L L A S P 11 10218 558 E L  G L A E C D I I 11 10219 566 I I  D I P Q L F K T 11 10220 580 A T  A F F P D L V N 11 10221 598 G I  P K P F G P I I 11 10222 623 P L  G L H C T F I D 11 10223 636 P Y  H M L H G E V H 11 10224 11 L E  H P T S A V C V 10 10225 21 A G  V E T L V D I Y 10 10226 22 G V  E T L V D I Y G 10 10227 34 P E  G T E M F E V Y 10 10228 65 T R  R W R F D A T L 10 10229 67 R W  R F D A T L E I 10 10230 85 N D  L N D S H V Q I 10 10231 93 Q I  S Y H S S H E P 10 10232 151 L V  N C D R D D P S 10 10233 175 Q D  L E D M S V M V 10 10234 185 L R  T Q G P A A L F 10 10235 254 L S  F P D A G F T G 10 10236 259 A G  F T G L I S F H 10 10237 301 S T  L P P L E V Y V 10 10238 334 L T  I C P Q A E N R 10 10239 362 K T  L P V V F D S P 10 10240 432 G N  L P G S S G R R 10 10241 487 R M  L L A S P G A C 10 10242 494 G A  C F K L F Q E K 10 10243 501 Q E  K Q K C G H G R 10 10244 512 L L  F Q G V V D D E 10 10245 524 K T  I S I N Q V L S 10 10246 546 S C  I D W N R E V L 10 10247 548 I D  W N R E V L K R 10 10248 575 T E  R K K A T A F F 10 10249 630 F I  D D F T P Y H M 10 10250 15 T S  A V C V A G V E 9 10251 56 M E  R G R E R A D T 9 10252 71 D A  T L E I I V V M 9 10253 121 C D  L N C E G R Q D 9 10254 163 V Q  D N C D Q H V H 9 10255 193 L F  D D H K L V L H 9 10256 206 Y D  A K R A Q V F H 9 10257 227 R H  V L G Q D K V S 9 10258 235 V S  Y E V P R L H G 9 10259 252 E G  L S F P D A G F 9 10260 257 P D  A G F T G L I S 9 10261 281 A S  P I F T D T V V 9 10262 303 L P  P L E V Y V C R 9 10263 349 Q D  E M E L G Y V Q 9 10264 369 D S  P R N G E L Q D 9 10265 370 S P  R N G E L Q D F 9 10266 414 P P  V V A N G K E Y 9 10267 435 P G  S S G R R V T Q 9 10268 447 R D  F L H A Q K V Q 9 10269 448 D F  L H A Q K V Q P 9 10270 452 A Q  K V Q P P V E L 9 10271 468 V G  H V D E F L S F 9 10272 478 V P  A P D G K G F R 9 10273 485 G F  R M L L A S P G 9 10274 491 A S  P G A C F K L F 9 10275 527 S I  N Q V L S N K D 9 10276 538 I N  Y N K F V Q S C 9 10277 564 C D  I I D I P Q L F 9 10278 621 L E  P L G L H C T F 9 10279 16 S A  V C V A G V E T 8 10280 31 G S  V P E G T E M F 8 10281 53 S P  N M E R G R E R 8 10282 82 S P  S N D L N D S H 8 10283 87 L N  D S H V Q I S Y 8 10284 136 K R  Q W V W G P S G 8 10285 147 G G  I L L V N C D R 8 10286 174 L Q  D L E D M S V M 8 10287 177 L E  D M S V M V L R 8 10288 188 Q G  P A A L F D D H 8 10289 208 A K  R A Q V F H I C 8 10290 217 C G  P E D V C E A Y 8 10291 218 G P  E D V C E A Y R 8 10292 239 V P  R L H G D E E R 8 10293 275 S N  E D F S A S P I 8 10294 280 S A  S P I F T D T V 8 10295 310 V C  R V R N N T C F 8 10296 316 N T  C F V D A V A E 8 10297 328 R K  A G C K L T I C 8 10298 350 D E  M E L G Y V Q A 8 10299 405 D S  F G N L E V S P 8 10300 408 G N  L E V S P P V V 8 10301 425 L G  R I L I G G N L 8 10302 431 G G  N L P G S S G R 8 10303 437 S S  G R R V T Q V V 8 10304 440 R R  V T Q V V R D F 8 10305 463 V D  W L A V G H V D 8 10306 464 D W  L A V G H V D E 8 10307 503 K Q  K C G H G R A L 8 10308 504 Q K  C G H G R A L L 8 10309 552 R E  V L K R E L G L 8 10310 557 R E  L G L A E C D I 8 10311 573 F K  T E R K K A T A 8 10312 584 F P  D L V N M L V L 8 10313 609 G C  C C L E E K V R 8 10314 628 C T  F I D D F T P Y 8 10315 629 T F  I D D F T P Y H 8 10316 3 L Q  R I V R V S L E 7 10317 9 V S  L E H P T S A V 7 10318 29 I Y  G S V P E G T E 7 10319 61 E R  A D T R R W R F 7 10320 63 A D  T R R W R F D A 7 10321 64 D T  R R W R F D A T 7 10322 88 N D  S H V Q I S Y H 7 10323 99 S H  E P L P L A Y A 7 10324 103 L P  L A Y A V L Y L 7 10325 126 E G  R Q D R N F V D 7 10326 153 N C  D R D D P S C D 7 10327 161 C D  V Q D N C D Q H 7 10328 201 L H  T S S Y D A K R 7 10329 214 F H  I C G P E D V C 7 10330 219 P E  D V C E A Y R H 7 10331 248 R F  F V E G L S F P 7 10332 291 F R  V A P W I M T P 7 10333 315 N N  T C F V D A V A 7 10334 337 C P  Q A E N R N D R 7 10335 340 A E  N R N D R W I Q 7 10336 341 E N  R N D R W I Q D 7 10337 343 R N  D K W I Q D E M 7 10338 346 R W  I Q D E M E L G 7 10339 357 V Q  A P H K T L P V 7 10340 374 G E  L Q D F P Y K R 7 10341 395 E P  R D R S V S G L 7 10342 399 R S  V S G L D S F G 7 10343 402 S G  L D S F G N L E 7 10344 426 G R  I L I G G N L P 7 10345 439 G R  R V T Q V V R D 7 10346 455 V Q  P P V E L F V D 7 10347 509 G R  A L L F Q G V V 7 10348 555 L K  R E L G L A E C 7 10349 556 K R  E L G L A E C D 7 10350 577 R K  K A T A F F P D 7 10351 582 A F  F P D L V N M L 7 10352 595 K H  L G I P K P F G 7 10353 597 L G  I P K P F G P I 7 10354 599 I P  K P F G P I I N 7 10355 648 T N  V C R K P F S F 7 10356 1 M S  L Q R I V R V S 6 10357 40 F E  V Y G T P G V D 6 10358 42 V Y  G T P G V D I Y 6 10359 69 R F  D A T L E I I V 6 10360 74 L E  I I V V M N S P 6 10361 80 M N  S P S N D L N D 6 10362 84 S N  D L N D S H V Q 6 10363 92 V Q  I S Y H S S H E 6 10364 94 I S  Y H S S H E P L 6 10365 124 N C  E G R Q D R N F 6 10366 129 Q D  R N F V D K R Q 6 10367 131 R N  F V D K R Q W V 6 10368 145 G Y  G G I L L V N C 6 10369 164 Q D  N C D Q H V H C 6 10370 167 C D  Q H V H C L Q D 6 10371 222 V C  E A Y R H V L G 6 10372 240 P R  L H G D E E R F 6 10373 258 D A  G F T G L I S F 6 10374 274 D S  N E D F S A S P 6 10375 278 D F  S A S P I F T D 6 10376 286 T D  T V V F R V A P 6 10377 358 Q A  P H K T L P V V 6 10378 368 F D  S P R N G E L Q 6 10379 377 Q D  F P Y K R I L G 6 10380 392 V T  R E P R D R S V 6 10381 398 D R  S V S G L D S F 6 10382 436 G S  S G R R V T Q V 6 10383 453 Q K  V Q P P V E L F 6 10384 456 Q P  P V E L F V D W 6 10385 459 V E  L F V D W L A V 6 10386 473 E F  L S F V P A P D 6 10387 480 A P  D G K G F R M L 6 10388 482 D G  K G F R M L L A 6 10389 492 S P  G A C F K L F Q 6 10390 507 G H  G R A L L F Q G 6 10391 535 K D  L I N Y N K F V 6 10392 579 K A  T A F F P D L V 6 10393 585 P D  L V N M L V L G 6 10394 594 G K  H L G I P K P F 6 10395 633 D F  T P Y H M L H G 6 10396 640 L H  G E V H C G T N 6 10397 646 C G  T N V C R K P F 6 10398 13 H P  T S A V C V A G 5 10399 14 P T  S A V C V A G V 5 10400 24 E T  L V D I Y G S V 5 10401 35 E G  T E M F E V Y G 5 10402 37 T E  M F E V Y G T P 5 10403 38 E M  F E V Y G T P G 5 10404 48 V D  I Y I S P N M E 5 10405 50 I Y  I S P N M E R G 5 10406 52 I S  P N M E R G R E 5 10407 70 F D  A T L E I I V V 5 10408 100 H E  P L P L A Y A V 5 10409 106 A Y  A V L Y L T C V 5 10410 107 Y A  V L Y L T C V D 5 10411 117 I S  L D C D L N C E 5 10412 119 L D  C D L N C E G R 5 10413 132 N F  V D K R Q W V W 5 10414 142 G P  S G Y G G I L L 5 10415 155 D R  D D P S C D V Q 5 10416 180 M S  V M V L R T Q G 5 10417 191 A A  L F D D H K L V 5 10418 196 D H  K L V L H T S S 5 10419 216 I C  G P E D V C E A 5 10420 243 H G  D E E R F F V E 5 10421 244 G D  E E R F F V E G 5 10422 261 F T  G L I S F H V T 5 10423 265 I S  F H V T L L D D 5 10424 273 D D  S N E D F S A S 5 10425 297 I M  T P S T L P P L 5 10426 306 L E  V Y V C R V R N 5 10427 313 V R  N N T C F V D A 5 10428 314 R N  N T C F V D A V 5 10429 321 D A  V A E L A R K A 5 10430 331 G C  K L T I C P Q A 5 10431 354 L G  Y V Q A P H K T 5 10432 360 P H  K T L P V V F D 5 10433 379 F P  Y K R I L G P D 5 10434 381 Y K  R I L G P D F G 5 10435 388 D F  G Y V T R E P R 5 10436 390 G Y  V T R E P R D R 5 10437 406 S F  G N L E V S P P 5 10438 410 L E  V S P P V V A N 5 10439 434 L P  G S S G R R V T 5 10440 451 H A  Q K V Q P P V E 5 10441 476 S F  V P A P D G K G 5 10442 499 L F  Q E K Q K C G H 5 10443 506 C G  H G K A L L F Q 5 10444 508 H G  R A L L F Q G V 5 10445 523 V K  T I S I N Q V L 5 10446 534 N K  D L I N Y N K F 5 10447 601 K P  F G P I I N G C 5 10448 610 C C  C L E E K V R S 5 10449 611 C C  L E E K V R S L 5 10450 617 V R  S L L E P L G L 5 10451 622 E P  L G L H C T F I 5 10452 632 D D  F T P Y H M L H 5 10453 635 T P  Y H M L H G E V 5 10454 637 Y H  M L H G E V H C 5 10455 651 C R  K P F S F K W W 5 10456 652 R K  P F S F K W W N 5 10457 655 F S  F K W W N M V P 5 10458 7 V R  V S L E H P T S 4 10459 12 E H  P T S A V C V A 4 10460 20 V A  G V E T L V D I 4 10461 30 Y G  S V P E G T E M 4 10462 46 P G  V D I Y I S P N 4 10463 55 N M  E R G R E R A D 4 10464 62 R A  D T R R W R F D 4 10465 83 P S  N D L N D S H V 4 10466 96 Y H  S S H E P L P L 4 10467 110 L Y  L T C V D I S L 4 10468 125 C E  G K Q D R N F V 4 10469 134 V D  K R Q W V W G P 4 10470 135 D K  R Q W V W G P S 4 10471 140 V W  G P S G Y G G I 4 10472 141 W G  P S G Y G G I L 4 10473 154 C D  R D D P S C D V 4 10474 179 D M  S V M V L R T Q 4 10475 195 D D  H K L V L H T S 4 10476 207 D A  K R A Q V F H I 4 10477 209 K R  A Q V F H I C G 4 10478 210 R A  Q V F H I C G P 4 10479 211 A Q  V F H I C G P E 4 10480 223 C E  A Y R H V L G Q 4 10481 231 G Q  D K V S Y E V P 4 10482 237 Y E  V P R L H G D E 4 10483 246 E E  R F F V E G L S 4 10484 276 N E  D F S A S P I F 4 10485 285 F T  D T V V F R V A 4 10486 290 V F  R V A P W I M T 4 10487 295 P W  I M T P S T L P 4 10488 299 T P  S T L P P L E V 4 10489 318 C F  V D A V A E L A 4 10490 323 V A  E L A R K A G C 4 10491 332 C K  L T I C P Q A E 4 10492 339 Q A  E N R N D R W I 4 10493 344 N D  R W I Q D E M E 4 10494 348 I Q  D E M E L G Y V 4 10495 355 G Y  V Q A P H K T L 4 10496 389 F G  Y V T R E P R D 4 10497 396 P R  D R S V S G L D 4 10498 404 L D  S F G N L E V S 4 10499 422 E Y  P L G R I L I G 4 10500 423 Y P  L G R I L I G C 4 10501 442 V T  Q V V R D F L H 4 10502 469 G H  V D E F L S F V 4 10503 471 V D  E F L S F V P A 4 10504 479 P A  P D G K C F R M 4 10505 483 G K  G F R M L L A S 4 10506 493 P G  A C F K L F Q E 4 10507 542 K F  V Q S C I D W N 4 10508 550 W N  R E V L K R E L 4 10509 559 L G  L A E C D I I D 4 10510 562 A E  C D I I D I P Q 4 10511 563 E C  D I I D I P Q L 4 10512 576 E R  K K A T A F F P 4 10513 578 K K  A T A F F P D L 4 10514 581 T A  F F P D L V N M 4 10515 588 V N  M L V L G K H L 4 10516 602 P F  G P I I N G C C 4 10517 603 F G  P I I N G C C C 4 10518 604 G P  I I N G C C C L 4 10519 614 E E  K V R S L L E P 4 10520 627 H C  T F I D D F T P 4 10521 641 H G  E V H C G T N V 4 10522 642 G E  V H C G T N V C 4 10523 18 V C  V A G V E T L V 3 10524 27 V D  I Y G S V P E G 3 10525 43 Y G  T P G V D I Y I 3 10526 59 G R  E R A D T R R W 3 10527 90 S H  V Q I S Y H S S 3 10528 112 L T  C V D I S L D C 3 10529 115 V D  I S L D C D L N 3 10530 130 D R  N F V D K R Q W 3 10531 138 Q W  V W G P S G Y G 3 10532 143 P S  G Y G G I L L V 3 10533 152 V N  C D R D D P S C 3 10534 172 H C  L Q D L E D M S 3 10535 178 E D  M S V M V L R T 3 10536 187 T Q  G P A A L F D D 3 10537 194 F D  D H K L V L H T 3 10538 202 H T  S S Y D A K R A 3 10539 245 D E  E R F F V E G L 3 10540 251 V E  G L S F P D A G 3 10541 255 S F  P D A G F T G L 3 10542 256 F P  D A G F T G L I 3 10543 269 V T  L L D D S N E D 3 10544 284 I F  T D T V V F R V 3 10545 287 D T  V V F R V A P W 3 10546 304 P P  L E V Y V C R V 3 10547 311 C R  V R N N T C F V 3 10548 317 T C  F V D A V A E L 3 10549 326 L A  R K A G C K L T 3 10550 329 K A  G C K L T I C P 3 10551 330 A G  C K L T I C P Q 3 10552 378 D F  P Y K R I L G P 3 10553 419 N G  K E Y P L G R I 3 10554 420 G K  E Y P L G R I L 3 10555 443 T Q  V V R D F L H A 3 10556 446 V R  D F L H A Q K V 3 10557 490 L A  S P G A C F K L 3 10558 495 A C  F K L F Q E K Q 3 10559 514 F Q  G V V D D E Q V 3 10560 520 D E  Q V K T I S I N 3 10561 539 N Y  N K F V Q S C I 3 10562 545 Q S  C I D W N R E V 3 10563 549 D W  N R F V L K R E 3 10564 613 L E  E K V R S L L E 3 10565 615 E K  V R S L L E P L 3 10566 631 I D  D F T P Y H M L 3 10567 650 V C  R K P F S F K W 3 10568 653 K P  F S F K W W N M 3 10569 33 V P  E G T E M F E V 2 10570 44 G T  P G V D I Y I S 2 10571 45 T P  G V D I Y I S P 2 10572 54 S N  M E R G R E R A 2 10573 120 D C  D L N C E G R Q 2 10574 169 Q H  V H C L Q D L E 2 10575 182 V M  V L R T Q G P A 2 10576 190 P A  A L F D D H K L 2 10577 213 V F  H I C G P E D V 2 10578 242 L H  G D E E R F F V 2 10579 260 G F  T G L I S F H V 2 10580 267 F H  V T L L D D S N 2 10581 272 L D  D S N E D F S A 2 10582 279 F S  A S P I F T D T 2 10583 293 V A  P W I M T P S T 2 10584 336 I C  P Q A E N R N D 2 10585 338 P Q  A E N R N D R W 2 10586 345 D R  W I Q D E M E L 2 10587 351 E M  E L G Y V Q A P 2 10588 371 P R  N G E L Q D F P 2 10589 387 P D  F G Y V T R E P 2 10590 401 V S  G L D S F G N L 2 10591 413 S P  P V V A N G K E 2 10592 417 V A  N G K E Y P L G 2 10593 457 P P  V E L F V D W L 2 10594 466 L A  V G H V D E F L 2 10595 472 D E  F L S F V P A P 2 10596 481 P D  G K G F R M L L 2 10597 497 F K  L F Q E K Q K C 2 10598 513 L F  Q G V V D D E Q 2 10599 518 V D  D E Q V K T I S 2 10600 519 D D  E Q V K T I S I 2 10601 528 I N  Q V L S N K D L 2 10602 572 L F  K T E R K K A T 2 10603 583 F F  P D L V N M L V 2 10604 589 N M  L V L G K H L G 2 10605 624 L G  L H C T F I D D 2 10606 638 H M  L H G E V H C G 2 10607 23 V E  T L V D I Y G S 1 10608 68 W R  F D A T L E I I 1 10609 95 S Y  H S S H E P L P 1 10610 113 T C  V D I S L D C D 1 10611 123 L N  C E G R Q D R N 1 10612 146 Y G  G I L L V N C D 1 10613 159 P S  C D V Q D N C D 1 10614 160 S C  D V Q D N C D Q 1 10615 165 D N  C D Q H V H C L 1 10616 171 V H  C L Q D L E D M 1 10617 203 T S  S Y D A K R A Q 1 10618 230 L G  Q D K V S Y E V 1 10619 236 S Y  E V P R L H G D 1 10620 249 F F  V E G L S F P D 1 10621 266 S F  H V T L L D D S 1 10622 277 E D  F S A S P I F T 1 10623 298 M T  P S T L P P L E 1 10624 308 V Y  V C R V R N N T 1 10625 342 N R  N D R W I Q D E 1 10626 361 H K  T L P V V F D S 1 10627 367 V F  D S P R N G E L 1 10628 386 G P  D F G Y V T R E 1 10629 407 F G  N L E V S P P V 1 10630 450 L H  A Q K V Q P P V 1 10631 486 F R  M L L A S P G A 1 10632 500 F Q  E K Q K C G H G 1 10633 502 E K  Q K C G H G R A 1 10634 529 N Q  V L S N K D L I 1 10635 540 Y N  K F V Q S C I D 1 10636 551 N R  E V L K R E L G 1 10637 593 L G  K H L G I P K P 1 10638 654 P F  S F K W W N M V 1 10639 184P1E2 v.2: HLA Peptide Scoring Results A3 10-mers SYFPEITHI 8 T L  A P L E V Y V C 18 10640 2 W I  M T P S T L A P 12 10641 6 P S  T L A P L E V Y 11 10642 7 S T  L A P L E V Y V 9 10643 9 L A  P L E V Y V C R 9 10644 3 I M  T P S T L A P L 8 10645 10 A P  L E V Y V C R V 6 10646 1 P W  I M T P S T L A 4 10647 5 T P  S T L A P L E V 4 10648 4 M T  P S T L A P L E 3 10649 184P1E2 v.3: HLA Peptide Scoring Results A3 10-mers SYFPEITHI 7 F V  P V P D G K G F 17 10650 9 P V  P D G K G F R M 14 10651 5 L S  F V P V P D G K 11 10652 4 F L  S F V P V P D G 10 10653 8 V P  V P D G K G F R 8 10654 3 E F  L S F V P V P D 7 10655 2 D E  F L S F V P V P 5 10656 6 S F  V P V P D G K G 5 10657 1 V D  E F L S F V P V 4 10658 10 V P  D G K G F R M L 3 10659

TABLE XL SEQ. Pos 1 2 3 4 5 6 7 8 9 0 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results A26 10-mers SYFPEITHI 176 D L E D M S V M V L 28 10660 221 D V C E A Y R H V L 26 10661 628 C T F I D D F T P Y 26 10662 228 H V L G Q D K V S Y 24 10663 325 E L A R K A G C K L 24 10664 411 E V S P P V V A N G 24 10665 465 W L A V G H V D E F 24 10666 263 G L I S F H V T L L 23 10667 531 V L S N K D L I N Y 23 10668 582 A F F P D L V N M L 23 10669 17 A V C V A G V E T L 22 10670 347 W I Q D E M E L G Y 22 10671 477 F V P A P D G K G F 22 10672 625 G L H C T F I D D F 22 10673 24 E T L V D I Y G S V 21 10674 47 G V D I Y I S P N M 21 10675 64 D T R R W R F D A T 21 10676 101 E P L P L A Y A V L 21 10677 233 D K V S Y E V P R L 21 10678 255 S F P D A G F T G L 21 10679 258 D A G F T G L I S F 21 10680 287 D T V V F R V A P W 21 10681 307 E V Y V C R V R N N 21 10682 395 E P R D R S V S G L 21 10683 398 D R S V S G L D S F 21 10684 460 E L F V D W L A V G 21 10685 553 E V L K R E L G L A 21 10686 563 E C D I I D I P Q L 21 10687 574 K T E R K K A T A F 21 10688 630 F I D D F T P Y H M 21 10689 86 D L N D S H V Q I S 20 10690 102 P L P L A Y A V L Y 20 10691 241 R L H G D E E R F F 20 10692 289 V V F R V A P W I M 20 10693 375 E L Q D F P Y K R I 20 10694 28 D I Y G S V P E G T 19 10695 41 E V Y G T P G V D I 19 10696 61 E R A D T R R W R F 19 10697 71 D A T L E I I V V M 19 10698 75 E I I V V M N S P S 19 10699 114 C V D I S L D C D L 19 10700 162 D V Q D N C D Q H V 19 10701 165 D N C D Q H V H C L 19 10702 168 D Q H V H C L Q D L 19 10703 192 A L F D D H K L V L 19 10704 245 D E E R F F V E G L 19 10705 247 E R F F V E G L S F 19 10706 252 E G L S F P D A G F 19 10707 270 T L L D D S N E D F 19 10708 416 V V A N G K E Y P L 19 10709 441 R V T Q V V R D F L 19 10710 488 M L L A S P G A C F 19 10711 565 D I I D I P Q L F K 19 10712 568 D I P Q L F K T E R 19 10713 586 D L V N M L V L G K 19 10714 612 C L E E K V R S L L 19 10715 633 D F T P Y H M L H G 19 10716 2 S L Q R I V R V S L 18 10717 49 D I Y I S P N M E R 18 10718 72 A T L E I I V V M N 18 10719 78 V V M N S P S N D L 18 10720 184 V L R T Q G P A A L 18 10721 238 E V P R L H G D E E 18 10722 378 D F P Y K R I L G P 18 10723 428 I L I G G N L P G S 18 10724 615 E K V R S L L E P L 18 10725 44 G T P G V D I Y I S 17 10726 116 D I S L D C D L N C 17 10727 250 F V E G L S F P D A 17 10728 283 P I F T D T V V F R 17 10729 292 R V A P W I M T P S 17 10730 362 K T L P V V F D S P 17 10731 367 V F D S P R N G E L 17 10732 491 A S P G A C F K L F 17 10733 643 E V H C G T N V C R 17 10734 14 P T S A V C V A G V 16 10735 21 A G V E T L V D I Y 16 10736 278 D F S A S P I F T D 16 10737 317 T C F V D A V A E L 16 10738 345 D R W I Q D E M E L 16 10739 353 E L G Y V Q A P H K 16 10740 383 R I L G P D F G Y V 16 10741 462 F V D W L A V G H V 16 10742 480 A P D G K G F R M L 16 10743 517 V V D D E Q V K T I 16 10744 522 Q V K T I S I N Q V 16 10745 534 N K D L I N Y N K F 16 10746 536 D L I N Y N K F V Q 16 10747 537 L I N Y N K F V Q S 16 10748 566 I I D I P Q L F K T 16 10749 581 T A F F P D L V N M 16 10750 591 L V L G K H L G I P 16 10751 634 F T P Y H M L H G E 16 10752 5 R I V R V S L E H P 15 10753 36 G T E M F E V Y G T 15 10754 122 D L N C E G R Q D R 15 10755 285 F T D T V V F R V A 15 10756 297 I M T P S T L P P L 15 10757 302 T L P P L E V Y V C 15 10758 370 S P R N G E L Q D F 15 10759 444 Q V V R D F L H A Q 15 10760 453 Q K V Q P P V E L F 15 10761 468 V G H V D E F L S F 15 10762 512 L L F Q G V V D D E 15 10763 525 T I S I N Q V L S N 15 10764 560 G L A E C D I I D I 15 10765 587 L V N M L V L G K H 15 10766 611 C C L E E K V R S L 15 10767 649 N V C R K P F S F K 15 10768 32 S V P E G T E M F E 14 10769 34 P E G T E M F E V Y 14 10770 42 V Y G T P G V D I Y 14 10771 73 T L E I I V V M N S 14 10772 174 L Q D L E D M S V M 14 10773 212 Q V F H I C G P E D 14 10774 217 C G P E D V C E A Y 14 10775 229 V L G Q D K V S Y E 14 10776 261 F T G L I S F H V T 14 10777 300 P S T L P P L E V Y 14 10778 322 A V A E L A R K A G 14 10779 350 D E M E L G Y V Q A 14 10780 366 V V F D S P R N G E 14 10781 440 R R V T Q V V R D F 14 10782 448 D F L H A Q K V Q P 14 10783 457 P P V E L F V D W L 14 10784 472 D E F L S F V P A P 14 10785 473 E F L S F V P A P D 14 10786 524 K T I S I N Q V L S 14 10787 558 E L G L A E C D I I 14 10788 578 K K A T A F F P D L 14 10789 620 L L E P L G L H C T 14 10790 631 I D D F T P Y H M L 14 10791 19 C V A G V E T L V D 13 10792 31 G S V P E G T E M F 13 10793 51 Y I S P N M E R G R 13 10794 87 L N D S H V Q I S Y 13 10795 98 S S H E P L P L A Y 13 10796 104 P L A Y A V L Y L T 13 10797 111 Y L T C V D I S L D 13 10798 124 N C E G R Q D R N F 13 10799 133 F V D K R Q W V W G 13 10800 139 W V W G P S G Y G G 13 10801 157 D D P S C D V Q D N 13 10802 193 L F D D H K L V L H 13 10803 200 V L H T S S Y D A K 13 10804 215 H I C G P E D V C E 13 10805 248 R F F V E G L S F P 13 10806 282 S P I F T D T V V F 13 10807 298 M T P S T L P P L E 13 10808 301 S T L P P L E V Y V 13 10809 334 L T I C P Q A E N R 13 10810 335 T I C P Q A E N R N 13 10811 382 K R I L G P D F G Y 13 10812 392 V T R E P R D R S V 13 10813 400 S V S G L D S F G N 13 10814 401 V S G L D S F G N L 13 10815 424 P L G K I L I G G N 13 10816 429 L I G G N L P G S S 13 10817 445 V V R D F L H A Q K 13 10818 449 F L H A Q K V Q P P 13 10819 470 H V D E F L S F V P 13 10820 482 D G K G F R M L L A 13 10821 511 A L L F Q G V V D D 13 10822 516 G V V D D E Q V K T 13 10823 564 C D I I D I P Q L F 13 10824 584 F P D L V N M L V L 13 10825 598 G I P K P F G P I I 13 10826 606 I I N G C C C L E E 13 10827 26 L V D I Y G S V P E 12 10828 76 I I V V M N S P S N 12 10829 77 I V V M N S P S N D 12 10830 91 H V Q I S Y H S S H 12 10831 103 L P L A Y A V L Y L 12 10832 109 V L Y L T C V D I S 12 10833 137 R Q W V W G P S G Y 12 10834 171 V H C L Q D L E D M 12 10835 178 E D M S V N V L R T 12 10836 181 S V M V L R T Q G P 12 10837 183 M V L R T Q G P A A 12 10838 185 L R T Q G P A A L F 12 10839 186 R T Q G P A A L F D 12 10840 197 H K L V L H T S S Y 12 10841 202 H T S S Y D A K R A 12 10842 205 S Y D A K R A Q V F 12 10843 207 D A K R A Q V F H I 12 10844 268 H V T L L D D S N E 12 10845 273 D D S N E D F S A S 12 10846 276 N E D F S A S P I F 12 10847 284 I F T D T V V F R V 12 10848 316 N T C F V D A V A E 12 10849 319 F V D A V A E L A R 12 10850 351 E M E L G Y V Q A P 12 10851 359 A P H K T L P V V F 12 10852 372 R N G E L Q D F P Y 12 10853 380 P Y K R I L G P D F 12 10854 388 D F G Y V T R E P R 12 10855 405 D S F G N L E V S P 12 10856 433 N L P G S S G R R V 12 10857 454 K V Q P P V E L F V 12 10858 527 S I N Q V L S N K D 12 10859 543 F V Q S C I D W N R 12 10860 547 C I D W N R E V L K 12 10861 571 Q L F K T E R K K A 12 10862 575 T E R K K A T A F F 12 10863 605 P I I N G C C C L E 12 10864 614 E E K V R S L L E P 12 10865 616 K V R S L L E P L G 12 10866 653 K P F S F K W W N M 12 10867 8 R V S L E H P T S A 11 10868 12 E H P T S A V C V A 11 10869 93 Q I S Y H S S H E P 11 10870 108 A V L Y L T C V D I 11 10871 148 G I L L V N C D R D 11 10872 170 H V H C L Q D L E D 11 10873 173 C L Q D L E D M S V 11 10874 195 D D H K L V L H T S 11 10875 220 E D V C E A Y R H V 11 10876 224 E A Y R H V L G Q D 11 10877 240 P R L H G D E E R F 11 10878 269 V T L L D D S N E D 11 10879 288 T V V F R V A P W I 11 10880 365 P V V F D S P R N G 11 10881 391 Y V T R E P R D R S 11 10882 403 G L D S F G N L E V 11 10883 406 S F G N L E V S P P 11 10884 414 P P V V A N G K E Y 11 10885 422 E Y P L G R I L I G 11 10886 452 A Q K V Q P P V E L 11 10887 479 P A P D G K G F R M 11 10888 490 L A S P G A C F K L 11 10889 498 K L F Q E K Q K C G 11 10890 504 Q K C G H G R A L L 11 10891 520 D E Q V K T I S I N 11 10892 530 Q V L S N K D L I N 11 10893 542 K F V Q S C I D W N 11 10894 546 S C I D W N R E V L 11 10895 549 D W N R E V L K R E 11 10896 550 W N R E V L K R E L 11 10897 580 A T A F F P D L V N 11 10898 619 S L L E P L G L H C 11 10899 621 L E P L G L H C T F 11 10900 639 M L H G E V H C G T 11 10901 647 G T N V C R K P F S 11 10902 648 T N V C R K P F S F 11 10903 6 I V R V S L E H P T 10 10904 22 G V E T L V D I Y G 10 10905 25 T L V D I Y G S V P 10 10906 38 E M F E V Y G T P G 10 10907 112 L T C V D I S L D C 10 10908 118 S L D C D L N C E G 10 10909 141 W G P S G Y G G I L 10 10910 142 G P S G Y G G I L L 10 10911 151 L V N C D R D D P S 10 10912 179 D M S V M V L R T Q 10 10913 190 P A A L F D D H K L 10 10914 199 L V L H T S S Y D A 10 10915 234 K V S Y E V P R L H 10 10916 264 L I S F H V T L L D 10 10917 266 S F H V T L L D D S 10 10918 271 L L D D S N E D F S 10 10919 274 D S N E D F S A S P 10 10920 296 W I M T P S T L P P 10 10921 309 Y V C R V R N N T C 10 10922 310 V C R V R N N T C F 10 10923 312 R V R N N T C F V D 10 10924 333 K L T I C P Q A E N 10 10925 343 R N D R W I Q D E M 10 10926 356 Y V Q A P H K T L P 10 10927 363 T L P V V F D S P R 10 10928 384 I L G P D F G Y V T 10 10929 415 P V V A N G K E Y P 10 10930 427 R I L I G G N L P G 10 10931 442 V T Q V V R D F L H 10 10932 458 P V E L F V D W L A 10 10933 466 L A V G H V D E F L 10 10934 467 A V G H V D E F L S 10 10935 481 P D G K G F R M L L 10 10936 489 L L A S P G A C F K 10 10937 503 K Q K C G H G R A L 10 10938 505 K C G H G R A L L F 10 10939 554 V L K R E L G L A E 10 10940 594 G K H L G I P K P F 10 10941 604 G P I I N G C C C L 10 10942 629 T F I D D F T P Y H 10 10943 646 C G T N V C R K P F 10 10944 10 S L E H P T S A V C 9 10945 30 Y G S V P E G T E M 9 10946 35 E G T E M F E V Y G 9 10947 65 T R R W R F D A T L 9 10948 96 Y H S S H E P L P L 9 10949 110 L Y L T C V D I S L 9 10950 198 K L V L H T S S Y D 9 10951 260 G F T G L I S F H V 9 10952 262 T G L I S F H V T L 9 10953 277 E D F S A S P I F T 9 10954 294 A P W I M T P S T L 9 10955 355 G Y V Q A P H K T L 9 10956 376 L Q D F P Y K R I L 9 10957 409 N L E V S P P V V A 9 10958 425 L G R I L I G G N L 9 10959 461 L F V D W L A V G H 9 10960 474 F L S F V P A P D G 9 10961 476 S F V P A P D G K G 9 10962 499 L F Q E K Q K C G H 9 10963 513 L F Q G V V D D E Q 9 10964 523 V K T I S I N Q V L 9 10965 552 R E V L K R E L G L 9 10966 583 F F P D L V N M L V 9 10967 588 V N M L V L G K H L 9 10968 590 M L V L G K H L G I 9 10969 592 V L G K H L G I P K 9 10970 596 H L G I P K P F G P 9 10971 601 K P F G P I I N G C 9 10972 617 V R S L L E P L G L 9 10973 632 D D F T P Y H M L H 9 10974 27 V D I Y G S V P E G 8 10975 39 M F E V Y G T P G V 8 10976 50 I Y I S P N M E R G 8 10977 94 I S Y H S S H E P L 8 10978 120 D C D L N C E G R Q 8 10979 145 G Y G G I L L V N C 8 10980 149 I L L V N C D R D D 8 10981 150 L L V N C D R D D P 8 10982 155 D R D D P S C D V Q 8 10983 196 D H K L V L H T S S 8 10984 244 G D E E R F F V E G 8 10985 249 F F V E G L S F P D 8 10986 253 G L S F P D A G F T 8 10987 305 P L E V Y V C R V R 8 10988 369 D S P R N G E L Q D 8 10989 419 N G K E Y P L G R I 8 10990 420 G K E Y P L G R I L 8 10991 484 K G F R M L L A S P 8 10992 496 C F K L F Q E K Q K 8 10993 502 E K Q K C G H G R A 8 10994 519 D D E Q V K T I S I 8 10995 521 E Q V K T I S I N Q 8 10996 526 I S I N Q V L S N K 8 10997 528 I N Q V L S N K D L 8 10998 555 L K R E L G L A E C 8 10999 567 I D I P Q L F K T E 8 11000 572 L F K T E R K K A T 8 11001 576 E R K K A T A F F P 8 11002 597 L G I P K P F G P I 8 11003 602 P F G P I I N G C C 8 11004 622 E P L G L H C T F I 8 11005 623 P L G L H C T F I D 8 11006 33 V P E G T E M F E V 7 11007 68 W R F D A T L E I I 7 11008 69 R F D A T L E I I V 7 11009 74 L E I I V V M N S P 7 11010 89 D S H V Q I S Y H S 7 11011 99 S H E P L P L A Y A 7 11012 126 E G R Q D R N F V D 7 11013 130 D R N F V D K R Q W 7 11014 132 N F V D K R Q W V W 7 11015 135 D K R Q W V W G P S 7 11016 140 V W G P S G Y G G I 7 11017 158 D P S C D V Q D N C 7 11018 216 I C G P E D V C E A 7 11019 243 H G D E E R F F V E 7 11020 259 A G F T G L I S F H 7 11021 290 V F R V A P W I M T 7 11022 304 P P L E V Y V C R V 7 11023 318 C F V D A V A E L A 7 11024 320 V D A V A E L A R K 7 11025 321 D A V A E L A R K A 7 11026 328 R K A G C K L T I C 7 11027 341 E N R N D R W I Q D 7 11028 346 R W I Q D E M E L G 7 11029 348 I Q D E M E L G Y V 7 11030 385 L G P D F G Y V T R 7 11031 410 L E V S P P V V A N 7 11032 417 V A N G K E Y P L G 7 11033 423 Y P L G R I L I G G 7 11034 436 G S S G R R V T Q V 7 11035 455 V Q P P V E L F V D 7 11036 464 D W L A V G H V D E 7 11037 485 G F R M L L A S P G 7 11038 593 L G K H L G I P K P 7 11039 644 V H C G T N V C R K 7 11040 651 C R K P F S F K W W 7 11041 654 P F S F K W W N M V 7 11042 46 P G V D I Y I S P N 6 11043 57 E R G R E R A D T R 6 11044 81 N S P S N D L N D S 6 11045 90 S H V Q I S Y H S S 6 11046 127 G R Q D R N F V D K 6 11047 128 R Q D R N F V D K R 6 11048 134 V D K R Q W V W G P 6 11049 144 S G Y G G I L L V N 6 11050 177 L E D M S V M V L R 6 11051 187 T Q G P A A L F D D 6 11052 194 F D D H K L V L H T 6 11053 213 V F H I C G P E D V 6 11054 223 C E A Y R H V L G Q 6 11055 231 G Q D K V S Y E V P 6 11056 246 E E R F F V E G L S 6 11057 265 I S F H V T L L D D 6 11058 279 F S A S P I F T D T 6 11059 303 L P P L E V Y V C R 6 11060 342 N R N D R W I Q D E 6 11061 358 Q A P H K T L P V V 6 11062 360 P H K T L P V V F D 6 11063 386 G P D F G Y V T R E 6 11064 439 G R R V T Q V V R D 6 11065 456 Q P P V E L F V D W 6 11066 469 G H V D E F L S F V 6 11067 493 P G A C F K L F Q E 6 11068 494 G A C F K L F Q E K 6 11069 506 C G H G R A L L F Q 6 11070 508 H G R A L L F Q G V 6 11071 538 I N Y N K F V Q S C 6 11072 600 P K P F G P I I N G 6 11073 1 M S L Q R I V R V S 5 11074 3 L Q R I V R V S L E 5 11075 20 V A G V E T L V D I 5 11076 23 V E T L V D I Y G S 5 11077 45 T P G V D I Y I S P 5 11078 70 F D A T L E I I V V 5 11079 88 N D S H V Q I S Y H 5 11080 92 V Q I S Y H S S H E 5 11081 97 H S S H E P L P L A 5 11082 106 A Y A V L Y L T C V 5 11083 113 T C V D I S L D C D 5 11084 117 I S L D C D L N C E 5 11085 156 R D D P S C D V Q D 5 11086 188 Q G P A A L F D D H 5 11087 210 R A Q V F H I C G P 5 11088 236 S Y E V P R L H G D 5 11089 291 F R V A P W I M T P 5 11090 313 V R N N T C F V D A 5 11091 314 R N N T C F V D A V 5 11092 330 A G C K L T I C P Q 5 11093 373 N G E L Q D F P Y K 5 11094 379 F P Y K R I L G P D 5 11095 387 P D F G Y V T R E P 5 11096 443 T Q V V R D F L H A 5 11097 471 V D E F L S F V P A 5 11098 483 G K G F R M L L A S 5 11099 507 G H G R A L L F Q G 5 11100 532 L S N K D L I N Y N 5 11101 548 I D W N K S V L K R 5 11102 577 R K K A T A F F P D 5 11103 585 P D L V N M L V L G 5 11104 607 I N G C C C L E E K 5 11105 9 V S L E H P T S A V 4 11106 37 T E M F E V Y G T P 4 11107 105 L A Y A V L Y L T C 4 11108 143 P S G Y G G I L L V 4 11109 146 Y G G I L L V N C D 4 11110 175 Q D L E D M S V M V 4 11111 208 A K R A Q V F H I C 4 11112 254 L S F P D A G F T G 4 11113 338 P Q A E N R N D R W 4 11114 361 H K T L P V V F D S 4 11115 377 Q D F P Y K R I L G 4 11116 404 L D S F G N L E V S 4 11117 412 V S P P V V A N G K 4 11118 495 A C F K L F Q E K Q 4 11119 561 L A E C D I I D I P 4 11120 618 R S L L E P L G L H 4 11121 624 L G L H C T F I D D 4 11122 638 H M L H G E V H C G 4 11123 655 F S F K W W N M V P 4 11124 4 Q R I V R V S L E H 3 11125 11 L E H P T S A V C V 3 11126 13 H P T S A V C V A G 3 11127 48 V D I Y I S P N M E 3 11128 54 P N M E R G R E R A 3 11129 56 M E R G R E R A D T 3 11130 58 R G R E R A D T R R 3 11131 80 M N S P S N D L N D 3 11132 83 P S N D L N D S H V 3 11133 115 V D I S L D C D L N 3 11134 123 L N C E G R Q D R N 3 11135 131 R N F V D K R Q W V 3 11136 152 V N C D R D D P S C 3 11137 201 L H T S S Y D A K R 3 11138 204 S S Y D A K R A Q V 3 11139 206 Y D A K R A Q V F H 3 11140 235 V S Y E V P R L H G 3 11141 257 P D A G F T G L I S 3 11142 272 L D D S N E D F S A 3 11143 293 V A P W I M T P S T 3 11144 331 G C K L T I C P Q A 3 11145 336 I C P Q A E N R N D 3 11146 352 M E L G Y V Q A P H 3 11147 357 V Q A P H K T L P V 3 11148 393 T R E P R D R S V S 3 11149 394 R E P R D R S V S G 3 11150 408 G N L S V S P P V V 3 11151 432 G N L P G S S G R R 3 11152 446 V R D F L H A Q K V 3 11153 450 L H A Q K V Q P P V 3 11154 475 L S F V P A P D G K 3 11155 478 V P A P D G K G F R 3 11156 501 Q E K Q K C G H G R 3 11157 518 V D D E Q V K T I S 3 11158 533 S N K D L I N Y N K 3 11159 573 F K T E R K K A T A 3 11160 595 K H L G I P K P F G 3 11161 599 I P K P F G P I I N 3 11162 7 V R V S L E H P T S 2 11163 16 S A V C V A G V E T 2 11164 43 Y G T P G V D I Y I 2 11165 52 I S P N M E R G R E 2 11166 85 N D L N D S H V Q I 2 11167 95 S Y H S S H E P L P 2 11168 100 H E P L P L A Y A V 2 11169 119 L D C D L N C E G R 2 11170 136 K R Q W V W G P S G 2 11171 147 G G I L L V N C D R 2 11172 153 N C D R D D P S C D 2 11173 161 C D V Q D N C D Q H 2 11174 164 Q D N C D Q H V H C 2 11175 166 N C D Q H V H C L Q 2 11176 172 H C L Q D L E D M S 2 11177 189 G P A A L F D D H K 2 11178 209 K K A Q V F H I C G 2 11179 214 F H I C G P E D V C 2 11180 218 G P E D V C E A Y R 2 11181 219 P E D V C E A Y R H 2 11182 230 L G Q D K V S Y E V 2 11183 232 Q D K V S Y E V P R 2 11184 237 Y E V P R L H G D E 2 11185 275 S N E D F S A S P I 2 11186 280 S A S P I F T D T V 2 11187 286 T D T V V F R V A P 2 11188 295 P W I M T P S T L P 2 11189 306 L E V Y V C R V R N 2 11190 323 V A E L A R K A G C 2 11191 332 C K L T I C P Q A E 2 11192 364 L P V V F D S P R N 2 11193 368 F D S P R N G E L Q 2 11194 371 P R N G E L Q D F P 2 11195 374 G E L Q D F P Y K R 2 11196 389 F G Y V T R E P R D 2 11197 399 R S V S G L D S F G 2 11198 413 S P P V V A N G K E 2 11199 418 A N G K E Y P L G R 2 11200 421 K E Y P L G R I L I 2 11201 426 G R I L I G G N L P 2 11202 430 I G G N L P G S S G 2 11203 431 G G N L P G S S G R 2 11204 435 P G S S G R R V T Q 2 11205 447 R D F L H A Q K V Q 2 11206 451 H A Q K V Q P P V E 2 11207 486 F R M L L A S P G A 2 11208 497 F K L F Q E K Q K C 2 11209 500 F Q E K Q K C G H G 2 11210 539 N Y N K F V Q S C I 2 11211 541 N K F V Q S C I D W 2 11212 557 R E L G L A E C D I 2 11213 610 C C C L E E K V R S 2 11214 637 Y H M L H G E V H C 2 11215 640 L H G E V H C G T N 2 11216 650 V C R K P F S F K W 2 11217 15 T S A V C V A G V E 1 11218 29 I Y G S V P E G T E 1 11219 53 S P N M E R G R E R 1 11220 55 N M E R G R E R A D 1 11221 59 G R E R A D T R R W 1 11222 62 R A D T R R W R F D 1 11223 67 R W R F D A T L E I 1 11224 79 V M N S P S N D L N 1 11225 82 S P S N D L N D S H 1 11226 84 S N D L N D S H V Q 1 11227 121 C D L N C E G R Q D 1 11228 129 Q D R N F V D K R Q 1 11229 154 C D R D D P S C D V 1 11230 159 P S C D V Q D N C D 1 11231 160 S C D V Q D N C D Q 1 11232 163 V Q D N C D Q H V H 1 11233 167 C D Q H V H C L Q D 1 11234 180 M S V M V L R T Q G 1 11235 203 T S S Y D A K R A Q 1 11236 222 V C E A Y R H V L G 1 11237 225 A Y R H V L G Q D K 1 11238 226 Y R H V L G Q D K V 1 11239 239 V P R L H G D E E R 1 11240 242 L H G D E E R F F V 1 11241 251 V E G L S F P D A G 1 11242 256 F P D A G F T G L I 1 11243 267 F H V T L L D D S N 1 11244 281 A S P I F T D T V V 1 11245 299 T P S T L P P L E V 1 11246 308 V Y V C R V R N N T 1 11247 315 N N T C F V D A V A 1 11248 326 L A R K A G C K L T 1 11249 327 A R K A G C K L T I 1 11250 344 N D R W I Q D E M E 1 11251 354 L G Y V Q A P H K T 1 11252 396 P R D R S V S G L D 1 11253 397 R D R S V S G L D S 1 11254 402 S G L D S F G N L E 1 11255 407 F G N L E V S P P V 1 11256 434 L P G S S G R R V T 1 11257 437 S S G R R V T Q V V 1 11258 438 S G R R V T Q V V R 1 11259 459 V E L F V D W L A V 1 11260 487 R M L L A S P G A C 1 11261 509 G R A L L F Q G V V 1 11262 510 R A L L F Q G V V D 1 11263 514 F Q G V V D D E Q V 1 11264 515 Q G V V D D E Q V K 1 11265 540 Y N K F V Q S C I D 1 11266 544 V Q S C I D W N R E 1 11267 545 Q S C I D W N R E V 1 11268 562 A E C D I I D I P Q 1 11269 569 I P Q L F K T E R K 1 11270 570 P Q L F K T E R K K 1 11271 603 F G P I I N G C C C 1 11272 608 N G C C C L E E K V 1 11273 613 L E E K V R S L L E 1 11274 635 T P Y H M L H G E V 1 11275 641 H G E V H C G T N V 1 11276 645 H C G T N V C R K P 1 11277 652 R K P F S F K W W N 1 11278 184P1E2 v.2: HLA Peptide Scoring Results A26 10-mers SYFPEITHI 3 I M T P S T L A P L 15 11279 8 T L A P L E V Y V C 15 11280 6 P S T L A P L E V Y 14 11281 4 M T P S T L A P L E 13 11282 2 W I M T P S T L A P 11 11283 7 S T L A P L E V Y V 11 11284 10 A P L E V Y V C R V 7 11285 9 L A P L E V Y V C R 6 11286 1 P W I M T P S T L A 2 11287 5 T P S T L A P L E V 1 11288 184P1E2 v.3: HLA Peptide Scoring Results A26 10-mers SYFPEITHI 7 F V P V P D G K G F 22 11289 9 P V P D G K G F R M 21 11290 10 V P D G K G F R M L 16 11291 3 E F L S F V P V P D 14 11292 2 D E F L S F V P V P 13 11293 4 F L S F V P V P D G 13 11294 6 S F V P V P D G K G 9 11295 1 V D E F L S F V P V 5 11296 5 L S F V P V P D G K 3 11297 8 V P V P D G K G F R 2 11298

TABLE XLI SEQ. Pos 1 2 3 4 5 6 7 8 9 0 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results B 0702 10-mers SYFPEITHI 480 A P D G K G F R M L 26 11299 101 E P L P L A Y A V L 24 11300 103 L P L A Y A V L Y L 24 11301 142 G P S G Y G G I L L 24 11302 395 E P R D R S V S G L 24 11303 584 F P D L V N M L V L 24 11304 294 A P W I M T P S T L 22 11305 359 A P H K T L P V V F 22 11306 457 P P V E L F V D W L 21 11307 622 E P L G L H C T F I 21 11308 282 S P I F T D T V V F 20 11309 299 T P S T L P P L E V 20 11310 604 G P I I N G C C C L 20 11311 256 F P D A G F T G L I 19 11312 434 L P G S S G R R V T 19 11313 33 V P E G T E M F E V 18 11314 370 S P R N G E L Q D F 18 11315 304 P P L E V Y V C R V 17 11316 653 K P F S F K W W N M 17 11317 635 T P Y H M L H G E V 16 11318 96 Y H S S H E P L P L 15 11319 192 A L F D D H K L V L 15 11320 492 S P G A C F K L F Q 15 11321 184 V L R T Q G P A A L 14 11322 297 I M T P S T L P P L 14 11323 452 A Q K V Q P P V E L 14 11324 504 Q K C G H G R A L L 14 11325 578 K K A T A F F P D L 14 11326 582 A F F P D L V N M L 14 11327 617 V R S L L E P L G L 14 11328 2 S L Q R I V R V S L 13 11329 13 H P T S A V C V A G 13 11330 17 A V C V A G V E T L 13 11331 65 T R R W R F D A T L 13 11332 386 G P D F G Y V T R E 13 11333 441 R V T Q V V R D F L 13 11334 456 Q P P V E L F V D W 13 11335 466 L A V G H V D E F L 13 11336 478 V P A P D G K G F R 13 11337 481 P D G K G F R M L L 13 11338 490 L A S P G A C F K L 13 11339 552 R E V L K R E L G L 13 11340 563 E C D I I D I P Q L 13 11341 601 K P F G P I I N G C 13 11342 56 M E R G R E R A D T 12 11343 67 R W R F D A T L E I 12 11344 82 S P S N D L N D S H 12 11345 94 I S Y H S S H E P L 12 11346 158 D P S C D V Q D N C 12 11347 176 D L E D M S V M V L 12 11348 189 G P A A L F D D H K 12 11349 221 D V C E A Y R H V L 12 11350 233 D K V S Y E V P R L 12 11351 239 V P R L H G D E E R 12 11352 255 S F P D A G F T G L 12 11353 262 T G L I S F H V T L 12 11354 263 G L I S F H V T L L 12 11355 303 L P P L E V Y V C R 12 11356 317 T C F V D A V A E L 12 11357 325 E L A R K A G C K L 12 11358 337 C P Q A E N R N D R 12 11359 357 V Q A P H K T L P V 12 11360 379 F P Y K R I L G P D 12 11361 401 V S G L D S F G N L 12 11362 416 V V A N G K E Y P L 12 11363 423 Y P L G R I L I G G 12 11364 425 L G R I L I G G N L 12 11365 436 G S S G R R V T Q V 12 11366 503 K Q K C G H G R A L 12 11367 546 S C I D W N R E V L 12 11368 550 W N R E V L K R E L 12 11369 569 I P Q L F K T E R K 12 11370 575 T E R K K A T A F F 12 11371 599 I P K P F G P I I N 12 11372 615 E K V R S L L E P L 12 11373 631 I D D F T P Y H M L 12 11374 14 P T S A V C V A G V 11 11375 41 E V Y G T P G V D I 11 11376 45 T P G V D I Y I S P 11 11377 78 V V M N S P S N D L 11 11378 114 C V D I S L D C D L 11 11379 165 D N C D Q H V H C L 11 11380 178 E D M S V M V L R T 11 11381 190 P A A L F D D H K L 11 11382 218 G P E D V C E A Y R 11 11383 245 D E E R F F V E G L 11 11384 327 A R K A G C K L T I 11 11385 364 L P V V F D S P R N 11 11386 367 V F D S P R N G E L 11 11387 376 L Q D F P Y K R I L 11 11388 454 K V Q P P V E L F V 11 11389 491 A S P G A C F K L F 11 11390 523 V K T I S I N Q V L 11 11391 528 I N Q V L S N K D L 11 11392 588 V N M L V L G K H L 11 11393 611 C C L E E K V R S L 11 11394 612 C L E E K V R S L L 11 11395 6 I V R V S L E H P T 10 11396 8 R V S L E H P T S A 10 11397 53 S P N M E R G R E R 10 11398 64 D T R R W R F D A T 10 11399 106 A Y A V L Y L T C V 10 11400 108 A V L Y L T C V D I 10 11401 110 L Y L T C V D I S L 10 11402 141 W G P S G Y G G I L 10 11403 168 D Q H V H C L Q D L 10 11404 194 F D D H K L V L H T 10 11405 216 I C G P E D V C E A 10 11406 241 R L H G D E E R F F 10 11407 250 F V E G L S F P D A 10 11408 280 S A S P I F T D T V 10 11409 281 A S P I F T D T V V 10 11410 345 D R W I Q D E M E L 10 11411 355 G Y V Q A P H K T L 10 11412 383 R I L G P D F G Y V 10 11413 384 I L G P D F G Y V T 10 11414 413 S P P V V A N G K E 10 11415 414 P P V V A N G K E Y 10 11416 420 G K E Y P L G R I L 10 11417 471 V D E F L S F V P A 10 11418 482 D G K G F R M L L A 10 11419 505 K C G H G R A L L F 10 11420 508 H G R A L L F Q G V 10 11421 11 L E H P T S A V C V 9 11422 12 E H P T S A V C V A 9 11423 20 V A G V E T L V D I 9 11424 30 Y G S V P E G T E M 9 11425 61 E R A D T R R W R F 9 11426 63 A D T R R W R F D A 9 11427 69 R F D A T L E I I V 9 11428 71 D A T L E I I V V M 9 11429 97 H S S H E P L P L A 9 11430 125 C E G R Q D R N F V 9 11431 143 P S G Y G G I L L V 9 11432 205 S Y D A K R A Q V F 9 11433 242 L H G D E E R F F V 9 11434 247 E R F F V E G L S F 9 11435 253 G L S F P D A G F T 9 11436 261 F T G L I S F H V T 9 11437 279 F S A S P I F T D T 9 11438 285 F T D T V V F R V A 9 11439 301 S T L P P L E V Y V 9 11440 310 V C R V R N N T C F 9 11441 313 V R N N T C F V D A 9 11442 314 R N N T C F V D A V 9 11443 326 L A R K A G C K L T 9 11444 350 D E M E L G Y V Q A 9 11445 403 G L D S F G N L E V 9 11446 409 N L E V S P P V V A 9 11447 421 K E Y P L G R I L I 9 11448 437 S S G R R V T Q V V 9 11449 443 T Q V V R D F L H A 9 11450 450 L H A Q K V Q P P V 9 11451 459 V E L F V D W L A V 9 11452 468 V G H V D E F L S F 9 11453 557 R E L G L A E C D I 9 11454 574 K T E R K K A T A F 9 11455 597 L G I P K P F G P I 9 11456 9 V S L E H P T S A V 8 11457 16 S A V C V A G V E T 8 11458 18 V C V A G V E T L V 8 11459 28 D I Y G S V P E G T 8 11460 31 G S V P E G T E M F 8 11461 39 M F E V Y G T P G V 8 11462 47 G V D I Y I S P N M 8 11463 54 P N M E R G R E R A 8 11464 70 F D A T L E I I V V 8 11465 85 N D L N D S H V Q I 8 11466 99 S H E P L P L A Y A 8 11467 124 N C E G R Q D R N F 8 11468 131 R N F V D K R Q W V 8 11469 140 V W G P S G Y G G I 8 11470 154 C D R D D P S C D V 8 11471 174 L Q D L E D M S V M 8 11472 175 Q D L E D M S V M V 8 11473 183 M V L R T Q G P A A 8 11474 191 A A L F D D H K L V 8 11475 202 H T S S Y D A K R A 8 11476 204 S S Y D A K R A Q V 8 11477 252 E G L S F P D A G F 8 11478 260 G F T G L I S F H V 8 11479 276 N E D F S A S P I F 8 11480 277 E D F S A S P I F T 8 11481 284 I F T D T V V F R V 8 11482 290 V F R V A P W I M T 8 11483 293 V A P W I M T P S T 8 11484 311 C R V R N N T C F V 8 11485 315 N N T C F V D A V A 8 11486 343 K N D R W I Q D E M 8 11487 348 I Q D E M E L G Y V 8 11488 358 Q A P H K T L P V V 8 11489 392 V T R E P R D R S V 8 11490 398 D R S V S G L D S F 8 11491 407 F G N L E V S P P V 8 11492 408 G N L E V S P P V V 8 11493 433 N L P G S S G R R V 8 11494 440 R R V T Q V V R D F 8 11495 462 F V D W L A V G H V 8 11496 465 W L A V G H V D E F 8 11497 486 F R M L L A S P G A 8 11498 488 M L L A S P G A C F 8 11499 502 E K Q K C G H G R A 8 11500 509 G R A L L F Q G V V 8 11501 516 G V V D D E Q V K T 8 11502 517 V V D D E Q V K T I 8 11503 535 K D L I N Y N K F V 8 11504 553 E V L K R E L G L A 8 11505 558 E L G L A E C D I I 8 11506 566 I I D I P Q L F K T 8 11507 571 Q L F K T E R K K A 8 11508 579 K A T A F F P D L V 8 11509 581 T A F F P D L V N M 8 11510 590 H L V L G K H L G I 8 11511 598 G I P K P F G P I I 8 11512 639 H L H G E V H C G T 8 11513 646 C G T N V C R K P F 8 11514 654 P F S F K W W N M V 8 11515 19 C V A G V E T L V D 7 11516 24 E T L V D I Y G S V 7 11517 36 G T E M F E V Y G T 7 11518 43 Y G T P G V D I Y I 7 11519 100 H E P L P L A Y A V 7 11520 104 P L A Y A V L Y L T 7 11521 182 V M V L R T Q G P A 7 11522 185 L R T Q G P A A L F 7 11523 207 D A K R A Q V F H I 7 11524 220 E D V C E A Y R H V 7 11525 258 D A G F T G L I S F 7 11526 272 L D D S N E D F S A 7 11527 275 S N E D F S A S P I 7 11528 288 T V V F R V A P W I 7 11529 308 V Y V C R V R N N T 7 11530 321 D A V A E L A R K A 7 11531 331 G C K L T I C P Q A 7 11532 375 E L Q D F P Y K R I 7 11533 380 P Y K R I L G P D F 7 11534 446 V R D F L H A Q K V 7 11535 453 Q K V Q P P V E L F 7 11536 469 G H V D E F L S F V 7 11537 477 F V P A P D G K G F 7 11538 514 F Q G V V D D E Q V 7 11539 519 D D E Q V K T I S I 7 11540 534 N K D L I N Y N K F 7 11541 539 N Y N K F V Q S C I 7 11542 560 G L A E C D I I D I 7 11543 572 L F K T E R K K A T 7 11544 573 F K T E R K K A T A 7 11545 594 C K H L G I P K P F 7 11546 620 L L E P L G L H C T 7 11547 626 L H C T F I D D F T 7 11548 630 F I D D F T P Y H M 7 11549 641 H G E V H C G T N V 7 11550 68 W R F D A T L E I I 6 11551 83 P S N D L N D S H V 6 11552 162 D V Q D N C D Q H V 6 11553 171 V H C L Q D L E D M 6 11554 173 C L Q D L E D M S V 6 11555 186 R T Q G P A A L F D 6 11556 199 L V L H T S S Y D A 6 11557 208 A K R A Q V F H I C 6 11558 213 V F H I C G P E D V 6 11559 226 Y R H V L G Q D K V 6 11560 230 L G Q D K V S Y E V 6 11561 240 P R L H G D E E R F 6 11562 270 T L L D D S N E D F 6 11563 289 V V F R V A P W I M 6 11564 318 C F V D A V A E L A 6 11565 339 Q A E N R N D R W I 6 11566 354 L G Y V Q A P H K T 6 11567 411 E V S P P V V A N G 6 11568 418 A N G K E Y P L G R 6 11569 419 N G K E Y P L G R I 6 11570 458 P V E L F V D W L A 6 11571 479 P A P D G K G F R M 6 11572 522 Q V K T I S I N Q V 6 11573 529 N Q V L S N K D L I 6 11574 545 Q S C I D W N R E V 6 11575 564 C D I I D I P Q L F 6 11576 580 A T A F F P D L V N 6 11577 583 F F P D L V N M L V 6 11578 608 N G C C C L E E K V 6 11579 621 L E P L G L H C T F 6 11580 625 G L H C T F I D D F 6 11581 648 T N V C R K P F S F 6 11582 60 R E R A D T R R W R 5 11583 72 A T L E I I V V N N 5 11584 80 N M S P S N D L N D 5 11585 144 S G Y G G I L L V N 5 11586 145 C Y G G I L L V N C 5 11587 156 R D D P S C D V Q D 5 11588 206 Y D A K R A Q V F H 5 11589 257 P D A G F T G L I S 5 11590 264 L I S F H V T L L D 5 11591 292 R V A P W I M T P S 5 11592 296 W I M T P S T L P P 5 11593 319 F V D A V A E L A R 5 11594 322 A V A E L A R K A G 5 11595 328 R K A G C K L T I C 5 11596 397 R D R S V S G L D S 5 11597 435 P G S S G R R V T Q 5 11598 438 S G R R V T Q V V R 5 11599 439 G R R V T Q V V R D 5 11600 506 C G H G R A L L F Q 5 11601 511 A L L F Q G V V D D 5 11602 525 T I S I N Q V L S N 5 11603 595 K H L G I P K P F G 5 11604 606 I I N G C C C L E E 5 11605 26 L V D I Y G S V P E 4 11606 58 R G R E R A D T R R 4 11607 116 D I S L D C D L N C 4 11608 126 E G R Q D R N F V D 4 11609 133 F V D K R Q W V W G 4 11610 215 H I C G P E D V C E 4 11611 223 C E A Y R H V L G Q 4 11612 225 A Y R H V L G Q D K 4 11613 228 H V L G Q D K V S Y 4 11614 273 D D S N E D F S A S 4 11615 283 P I F T D T V V F R 4 11616 286 T D T V V F R V A P 4 11617 312 R V R N N T C F V D 4 11618 330 A G C K L T I C P Q 4 11619 352 M E L G Y V Q A P H 4 11620 360 P H K T L P V V F D 4 11621 400 S V S G L D S F G N 4 11622 405 D S F G N L E V S P 4 11623 410 L E V S P P V V A N 4 11624 427 R I L I G G N L P G 4 11625 428 I L I G G N L P G S 4 11626 483 G K G F R M L L A S 4 11627 510 R A L L F Q G V V D 4 11628 548 I D W N R E V L K R 4 11629 577 R K K A T A F F P D 4 11630 616 K V R S L L E P L G 4 11631 3 L Q R I V R V S L E 3 11632 21 A G V E T L V D I Y 3 11633 34 P E G T E M F E V Y 3 11634 35 E G T E M F E V Y G 3 11635 38 E M F E V Y G T P G 3 11636 51 Y I S P N M E R G R 3 11637 62 R A D T R R W R F D 3 11638 98 S S H E P L P L A Y 3 11639 105 L A Y A V L Y L T C 3 11640 127 G R Q D R N F V D K 3 11641 128 R Q D R N F V D K R 3 11642 135 D K R Q W V W G P S 3 11643 177 L E D M S V M V L R 3 11644 193 L F D D H K L V L H 3 11645 203 T S S Y D A K R A Q 3 11646 211 A Q V F H I C C P E 3 11647 222 V C E A Y R H V L G 3 11648 231 G Q D K V S Y E V P 3 11649 232 Q D K V S Y E V P R 3 11650 234 K V S Y E V P R L H 3 11651 235 V S Y E V P R L H G 3 11652 243 H G D E E R F F V E 3 11653 244 G D E E R F F V E G 3 11654 246 E E R F F V E G L S 3 11655 259 A G F T G L I S F H 3 11656 265 I S F H V T L L D D 3 11657 278 D F S A S P I F T D 3 11658 287 D T V V F R V A P W 3 11659 302 T L P P L E V Y V C 3 11660 306 L E V Y V C R V R N 3 11661 316 N T C F V D A V A E 3 11662 324 A E L A R K A G C K 3 11663 329 K A G C K L T I C P 3 11664 340 A E N R N D R W I Q 3 11665 341 E N R N D R W I Q D 3 11666 351 E M E L G Y V Q A P 3 11667 353 E L G Y V Q A P H K 3 11668 362 K T L P V V F D S P 3 11669 368 F D S P R N G E L Q 3 11670 371 P R N G E L Q D F P 3 11671 372 R N G E L Q D F P Y 3 11672 381 Y K R I L G P D F G 3 11673 387 P D F G Y V T R E P 3 11674 388 D F G Y V T R E P R 3 11675 393 T R E P R D R S V S 3 11676 394 R E P R D R S V S G 3 11677 404 L D S F G N L E V S 3 11678 406 S F G N L E V S P P 3 11679 417 V A N G K E Y P L G 3 11680 422 E Y P L G R I L I G 3 11681 429 L I G G N L P G S S 3 11682 445 V V R D F L H A Q K 3 11683 449 F L H A Q K V Q P P 3 11684 451 H A Q K V Q P P V E 3 11685 460 E L F V D W L A V G 3 11686 464 D W L A V G H V D E 3 11687 467 A V G H V D E F L S 3 11688 472 D E F L S F V P A P 3 11689 473 E F L S F V P A P D 3 11690 474 F L S F V P A P D G 3 11691 485 G F R M L L A S P G 3 11692 495 A C F K L F Q E K Q 3 11693 524 K T I S I N Q V L S 3 11694 537 L I N Y N K F V Q S 3 11695 547 C I D W N R E V L K 3 11696 554 V L K R E L G L A E 3 11697 555 L K R E L G L A E C 3 11698 562 A E C D I I D I P Q 3 11699 565 D I I D I P Q L F K 3 11700 567 I D I P Q L F K T E 3 11701 576 E R K K A T A F F P 3 11702 586 D L V N M L V L G K 3 11703 592 V L G K H L G I P K 3 11704 613 L E E K V R S L L E 3 11705 614 E E K V R S L L E P 3 11706 628 C T F I D D F T P Y 3 11707 633 D F T P Y H M L H G 3 11708 637 Y H M L H G E V H C 3 11709 643 E V H C G T N V C R 3 11710 644 V H C G T N V C R K 3 11711 650 V C R K P F S F K W 3 11712 1 M S L Q R I V R V S 2 11713 4 Q R I V R V S L E H 2 11714 10 S L E H P T S A V C 2 11715 15 T S A V C V A G V E 2 11716 27 V D I Y G S V P E G 2 11717 29 I Y G S V P E G T E 2 11718 42 V Y G T P G V D I Y 2 11719 44 G T P G V D I Y I S 2 11720 52 I S P N M E R G R E 2 11721 57 E R G R E R A D T R 2 11722 66 R R W R F D A T L E 2 11723 75 E I I V V M N S P S 2 11724 76 I I V V M N S P S N 2 11725 84 S N D L N D S H V Q 2 11726 88 N D S H V Q I S Y H 2 11727 93 Q I S Y H S S H E P 2 11728 102 P L P L A Y A V L Y 2 11729 107 Y A V L Y L T C V D 2 11730 112 L T C V D I S L D C 2 11731 129 Q D R N F V D K R Q 2 11732 136 K R Q W V W G P S G 2 11733 139 W V W G P S G Y G G 2 11734 146 Y G G I L L V N C D 2 11735 155 D R D D P S C D V Q 2 11736 163 V Q D N C D Q H V H 2 11737 164 Q D N C D Q H V H C 2 11738 167 C D Q H V H C L Q D 2 11739 170 H V H C L Q D L E D 2 11740 179 D H S V M V L R T Q 2 11741 180 M S V M V L R T Q G 2 11742 181 S V M V L R T Q G P 2 11743 187 T Q G P A A L F D D 2 11744 188 Q G P A A L F D D H 2 11745 209 K R A Q V F H I C G 2 11746 227 R H V L G Q D K V S 2 11747 229 V L G Q D K V S Y E 2 11748 248 R F F V E G L S F P 2 11749 251 V E G L S F P D A G 2 11750 271 L L D D S N E D F S 2 11751 307 E V Y V C R V R N N 2 11752 320 V D A V A E L A R K 2 11753 333 K L T I C P Q A E N 2 11754 344 N D R W I Q D E M E 2 11755 347 W I Q D E M E L G Y 2 11756 356 Y V Q A P H K T L P 2 11757 369 D S P R N G E L Q D 2 11758 373 N G E L Q D F P Y K 2 11759 377 Q D F P Y K R I L G 2 11760 378 D F P Y K R I L G P 2 11761 385 L G P D F G Y V T R 2 11762 399 R S V S G L D S F G 2 11763 430 I G G N L P G S S G 2 11764 447 R D F L H A Q K V Q 2 11765 448 D F L H A Q K V Q P 2 11766 455 V Q P P V E L F V D 2 11767 461 L F V D W L A V G H 2 11768 470 H V D E F L S F V P 2 11769 484 K G F R M L L A S P 2 11770 487 R M L L A S P G A C 2 11771 489 L L A S P G A C F K 2 11772 513 L F Q G V V D D E Q 2 11773 518 V D D E Q V K T I S 2 11774 521 E Q V K T I S I N Q 2 11775 530 Q V L S N K D L I N 2 11776 531 V L S N K D L I N Y 2 11777 538 I N Y N K F V Q S C 2 11778 544 V Q S C I D W N R E 2 11779 585 P D L V N M L V L G 2 11780 591 L V L G K H L G I P 2 11781 602 P F G P I I N G C C 2 11782 607 I N G C C C L E E K 2 11783 610 C C C L E E K V R S 2 11784 619 S L L E P L G L H C 2 11785 623 P L G L H C T F I D 2 11786 629 T F I D D F T P Y H 2 11787 642 G E V H C G T N V C 2 11788 647 G T N V C R K P F S 2 11789 649 N V C R K P F S F K 2 11790 651 C R K P F S F K W W 2 11791 655 F S F K W W N M V P 2 11792 5 R I V R V S L E H P 1 11793 7 V R V S L E H P T S 1 11794 25 T L V D I Y G S V P 1 11795 32 S V P E G T E M F E 1 11796 37 T E M F E V Y G T P 1 11797 40 F E V Y G T P G V D 1 11798 46 P G V D I Y I S P N 1 11799 50 I Y I S P N M E R G 1 11800 55 N M E R G R E R A D 1 11801 59 G R E R A D T R R W 1 11802 73 T L E I I V V M N S 1 11803 77 I V V M N S P S N D 1 11804 86 D L N D S H V Q I S 1 11805 87 L N D S H V Q I S Y 1 11806 95 S Y H S S H E P L P 1 11807 109 V L Y L T C V D I S 1 11808 117 I S L D C D L N C E 1 11809 118 S L D C D L N C E G 1 11810 120 D C D L N C E G R Q 1 11811 122 D L N C E G R Q D R 1 11812 132 N F V D K R Q W V W 1 11813 134 V D K R Q W V W G P 1 11814 137 R Q W V W G P S G Y 1 11815 149 I L L V N C D R D D 1 11816 150 L L V N C D R D D P 1 11817 151 L V N C D R D D P S 1 11818 152 V N C D R D D P S C 1 11819 153 N C D R D D P S C D 1 11820 157 D D P S C D V Q D N 1 11821 160 S C D V Q D N C D Q 1 11822 166 N C D Q H V H C L Q 1 11823 195 D D H K L V L H T S 1 11824 196 D H K L V L H T S S 1 11825 197 H K L V L H T S S Y 1 11826 198 K L V L H T S S Y D 1 11827 200 V L H T S S Y D A K 1 11828 201 L H T S S Y D A K R 1 11829 210 R A Q V F H I C G P 1 11830 212 Q V F H I C G P E D 1 11831 214 F H I C G P E D V C 1 11832 217 C G P E D V C E A Y 1 11833 219 P E D V C E A Y R H 1 11834 224 E A Y R H V L G Q D 1 11835 237 Y E V P R L H G D E 1 11836 238 E V P R L H G D E E 1 11837 249 F F V E G L S F P D 1 11838 254 L S F P D A G F T G 1 11839 274 D S N E D F S A S P 1 11840 291 F R V A P W I M T P 1 11841 295 P W I M T P S T L P 1 11842 298 M T P S T L P P L E 1 11843 300 P S T L P P L E V Y 1 11844 305 P L E V Y V C R V R 1 11845 323 V A E L A R K A G C 1 11846 332 C K L T I C P Q A E 1 11847 335 T I C P Q A E N R N 1 11848 336 I C P Q A E N R N D 1 11849 338 P Q A E N R N D R W 1 11850 346 R W I Q D E M E L G 1 11851 349 Q D E M E L G Y V Q 1 11852 361 H K T L P V V F D S 1 11853 363 T L P V V F D S P R 1 11854 366 V V F D S P R N G E 1 11855 382 K R I L G P D F G Y 1 11856 389 F G Y V T R E P R D 1 11857 391 Y V T R E P R D R S 1 11858 396 P R D R S V S G L D 1 11859 412 V S P P V V A N G K 1 11860 415 P V V A N G K E Y P 1 11861 424 P L G R I L I G G N 1 11862 432 G N L P G S S G R R 1 11863 444 Q V V R D F L H A Q 1 11864 463 V D W L A V G H V D 1 11865 476 S F V P A P D G K G 1 11866 493 P G A C F K L F Q E 1 11867 494 G A C F K L F Q E K 1 11868 498 K L F Q E K Q K C G 1 11869 500 F Q E K Q K C G H G 1 11870 507 G H G R A L L F Q G 1 11871 512 L L F Q G V V D D E 1 11872 515 Q G V V D D E Q V K 1 11873 526 I S I N Q V L S N K 1 11874 532 L S N K D L I N Y N 1 11875 536 D L I N Y N K F V Q 1 11876 542 K F V Q S C I D W N 1 11877 551 N R E V L K R E L G 1 11878 556 K R E L G L A E C D 1 11879 559 L G L A E C D I I D 1 11880 568 D I P Q L F K T E R 1 11881 593 L G K H L G I P K P 1 11882 596 H L G I P K P F G P 1 11883 609 G C C C L E E K V R 1 11884 618 R S L L E P L G L H 1 11885 624 L G L H C T F I D D 1 11886 636 P Y H M L H G E V H 1 11887 638 H M L H G E V H C G 1 11888 640 L H G E V H C G T N 1 11889 645 H C G T N V C R K P 1 11890 652 R K P F S F K W W N 1 11891 184P1E2 v.2: HLA Peptide Scoring Results B 0702 10-mers SYFPEITHI 5 T P S T L A P L E V 20 11892 10 A P L E V Y V C R V 19 11893 3 I M T P S T L A P L 14 11894 7 S T L A P L H V Y V 9 11895 1 P W I M T P S T L A 7 11896 2 W I M T P S T L A P 5 11897 8 T L A P L E V Y V C 4 11898 9 L A P L E V Y V C R 2 11899 4 M T P S T L A P L E 1 11900 6 P S T L A P L E V Y 1 11901 184P1E2 v.3: HLA Peptide Scoring Results B 0702 10-mers SYFPEITHI 10 V P D G K G F R M L 24 11902 8 V P V P D G K G F R 12 11903 1 V D E F L S F V P V 10 11904 7 F V P V P D G K G F 6 11905 9 P V P D G K G F R M 6 11906 3 E F L S F V P V P D 4 11907 4 F L S F V P V P D G 4 11908 2 D E F L S F V P V P 3 11909

TABLE XLII 184P1E2: HLA Peptide Scoring Results B08 10-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID No Data

TABLE XLIII 184P1E2: HLA Peptide Scoring Results B1510 10-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID No Data

TABLE XLIV 184P1E2: HLA Peptide Scoring Results B2705 10-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID No Data

TABLE XLV 184P1E2: HLA Peptide Scoring Results B2709 10-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID No Data

TABLE XLVI SEQ. Pos 1 2 3 4 5 6 7 8 9 0 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results B4402 10-mers SYFPEITHI 421 K E Y P L G R I L I 25 11910 34 P E G T E M F E V Y 23 11911 621 L E P L G L H C T F 23 11912 245 D E E R F F V E G L 22 11913 276 N E D F S A S P I F 22 11914 552 R E V L K R E L G L 22 11915 575 T E R K K A T A F F 21 11916 557 R E L G L A E C D I 20 11917 582 A F F P D L V N M L 20 11918 491 A S P G A C F K L F 19 11919 192 A L F D D H K L V L 18 11920 101 E P L P L A Y A V L 17 11921 282 S P I F T D T V V F 17 11922 480 A P D G K G F R M L 17 11923 546 S C I D W N R E V L 17 11924 563 E C D I I D I P Q L 17 11925 359 A P H K T L P V V F 16 11926 472 D E F L S F V P A P 16 11927 651 C R K P F S F K W W 16 11928 11 L E H P T S A V C V 15 11929 17 A V C V A G V E T L 15 11930 98 S S H E P L P L A Y 15 11931 100 H E P L P L A Y A V 15 11932 102 P L P L A Y A V L Y 15 11933 247 E R F F V E G L S F 15 11934 263 G L I S F H V T L L 15 11935 294 A P W I M T P S T L 15 11936 324 A E L A R K A G C K 15 11937 340 A E N R N D R W I Q 15 11938 382 K R I L G P D F G Y 15 11939 452 A Q K V Q P P V E L 15 11940 490 L A S P G A C F K L 15 11941 534 N K D L I N Y N K F 15 11942 562 A E C D I I D I P Q 15 11943 564 C D I I D I P Q L F 15 11944 574 K T E R K K A T A F 15 11945 597 L G I P K P F G P I 15 11946 2 S L Q R I V R V S L 14 11947 21 A G V E T L V D I Y 14 11948 23 V E T L V D I Y G S 14 11949 31 G S V P E G T E M F 14 11950 61 E R A D T R R W R F 14 11951 74 L E I I V V M N S P 14 11952 142 G P S G Y G G I L L 14 11953 184 V L R T Q G P A A L 14 11954 205 S Y D A K R A Q V F 14 11955 251 V E G L S F P D A G 14 11956 255 S F P D A G F T G L 14 11957 297 I M T P S T L P P L 14 11958 325 E L A R K A G C K L 14 11959 395 E P R D R S V S G L 14 11960 410 L E V S P P V V A N 14 11961 459 V E L F V D W L A V 14 11962 503 K Q K C G H G R A L 14 11963 505 K C G H G R A L L F 14 11964 517 V V D D E Q V K T I 14 11965 531 V L S N K D L I N Y 14 11966 541 N K F V Q S C I D W 14 11967 584 F P D L V N M L V L 14 11968 588 V N M L V L G K H L 14 11969 594 G K H L G I P K P F 14 11970 614 E E K V R S L L E P 14 11971 615 E K V R S L L E P L 14 11972 617 V R S L L E P L G L 14 11973 646 C G T N V C R K P F 14 11974 59 G R E R A D T R R W 13 11975 78 V V M N S P S N D L 13 11976 85 N D L N D S H V Q I 13 11977 96 Y H S S H E P L P L 13 11978 103 L P L A Y A V L Y L 13 11979 108 A V L Y L T C V D I 13 11980 110 L Y L T C V D I S L 13 11981 124 N C E G R Q D R N F 13 11982 125 C E G R Q D R N F V 13 11983 132 N F V D K R Q W V W 13 11984 165 D N C D Q H V H C L 13 11985 176 D L E D M S V M V L 13 11986 177 L E D M S V M V L R 13 11987 190 P A A L F D D H K L 13 11988 217 C G P E D V C E A Y 13 11989 221 D V C E A Y R H V L 13 11990 228 H V L G Q D K V S Y 13 11991 237 Y E V P R L H G D E 13 11992 246 E E R F F V E G L S 13 11993 252 E G L S F P D A G F 13 11994 262 T G L I S F H V T L 13 11995 300 P S T L P P L E V Y 13 11996 317 T C F V D A V A E L 13 11997 327 A R K A G C K L T I 13 11998 350 D E M E L G Y V Q A 13 11999 355 G Y V Q A P H K T L 13 12000 370 S P R N G E L Q D F 13 12001 374 G E L Q D F P Y K R 13 12002 375 E L Q D F P Y K R I 13 12003 394 R E P R D R S V S G 13 12004 440 R R V T Q V V R D F 13 12005 456 Q P P V E L F V D W 13 12006 477 F V P A P D G K G F 13 12007 504 Q K C G H G R A L L 13 12008 520 D E Q V K T I S I N 13 12009 578 K K A T A F F P D L 13 12010 604 G P I I N G C C C L 13 12011 611 C C L E E K V R S L 13 12012 625 G L H C T F I D D F 13 12013 628 C T F I D D F T P Y 13 12014 642 G E V H C G T N V C 13 12015 37 T E M F E V Y G T P 12 12016 40 F E V Y G T P G V D 12 12017 41 E V Y G T P G V D I 12 12018 42 V Y G T P G V D I Y 12 12019 43 Y G T P G V D I Y I 12 12020 56 M E R G R E R A D T 12 12021 60 R E R A D T R R W R 12 12022 68 W R F D A T L E I I 12 12023 87 L N D S H V Q I S Y 12 12024 130 D R N F V D K R Q W 12 12025 185 L R T Q G P A A L F 12 12026 197 H K L V L H T S S Y 12 12027 219 P E D V C E A Y R H 12 12028 223 C E A Y R H V L G Q 12 12029 241 R L H G D E E R F F 12 12030 258 D A G F T G L I S F 12 12031 270 T L L D D S N E D F 12 12032 306 L E V Y V C R V R N 12 12033 347 W I Q D E M E L G Y 12 12034 352 M E L G Y V Q A P H 12 12035 376 L Q D F P Y K R I L 12 12036 398 D R S V S G L D S F 12 12037 401 V S G L D S F G N L 12 12038 414 P P V V A N G K E Y 12 12039 453 Q K V Q P P V E L F 12 12040 468 V G H V D E F L S F 12 12041 481 P D G K G F R M L L 12 12042 528 I N Q V L S N K D L 12 12043 560 G L A E C D I I D I 12 12044 612 C L E E K V R S L L 12 12045 613 L E E K V R S L L E 12 12046 622 E P L G L H C T F I 12 12047 631 I D D F T P Y H M L 12 12048 65 T R R W R F D A T L 11 12049 114 C V D I S L D C D L 11 12050 137 R Q W V W G P S G Y 11 12051 140 V W G P S G Y G G I 11 12052 141 W G P S G Y G G I L 11 12053 168 D Q H V H C L Q D L 11 12054 233 D K V S Y E V P R L 11 12055 240 P R L H G D E E R F 11 12056 256 F P D A G F T G L I 11 12057 275 S N E D F S A S P I 11 12058 287 D T V V F R V A P W 11 12059 367 V F D S P R N G E L 11 12060 380 P Y K R I L G P D F 11 12061 416 V V A N G K E Y P L 11 12062 420 G K E Y P L G R I L 11 12063 441 R V T Q V V R D F L 11 12064 457 P P V E L F V D W L 11 12065 465 W L A V G H V D E F 11 12066 466 L A V G H V D E F L 11 12067 488 M L L A S P G A C F 11 12068 501 Q E K Q K C G H G R 11 12069 523 V K T I S I N Q V L 11 12070 529 N Q V L S N K D L I 11 12071 550 W N R E V L K R E L 11 12072 558 E L G L A E C D I I 11 12073 648 T N V C R K P F S F 11 12074 650 V C R K P F S F K W 11 12075 20 V A G V E T L V D I 10 12076 67 R W R F D A T L E I 10 12077 94 I S Y H S S H E P L 10 12078 207 D A K R A Q V F H I 10 12079 310 V C R V R N N T C F 10 12080 338 P Q A E N R N D R W 10 12081 339 Q A E N R N D R W I 10 12082 345 D R W I Q D E M E L 10 12083 372 R N G E L Q D F P Y 10 12084 419 N G K E Y P L G R I 10 12085 425 L G R I L I G G N L 10 12086 519 D D E Q V K T I S I 10 12087 567 I D I P Q L F K T E 10 12088 590 M L V L G K H L G I 10 12089 259 A G F T G L I S F H 9 12090 288 T V V F R V A P W I 9 12091 539 N Y N K F V Q S C I 9 12092 598 G I P K P F G P I I 9 12093 322 A V A E L A R K A G 8 12094 377 Q D F P Y K R I L G 8 12095 422 E Y P L G R I L I G 8 12096 601 K P F G P I I N G C 8 12097 191 A A L F D D H K L V 7 12098 280 S A S P I F T D T V 7 12099 411 E V S P P V V A N G 7 12100 12 E H P T S A V C V A 6 12101 70 F D A T L E I I V V 6 12102 71 D A T L E I I V V M 6 12103 72 A T L E I I V V M N 6 12104 156 R D D P S C D V Q D 6 12105 254 L S F P D A G F T G 6 12106 277 E D F S A S P I F T 6 12107 301 S T L P P L E V Y V 6 12108 302 T L P P L E V Y V C 6 12109 330 A G C K L T I C P Q 6 12110 351 E M E L G Y V Q A P 6 12111 362 K T L P V V F D S P 6 12112 412 V S P P V V A N G K 6 12113 426 G R I L I G G N L P 6 12114 447 R D F L H A Q K V Q 6 12115 455 V Q P P V E L F V D 6 12116 460 E L F V D W L A V G 6 12117 495 A C F K L F Q E K Q 6 12118 511 A L L F Q G V V D D 6 12119 522 Q V K T I S I N Q V 6 12120 524 K T I S I N Q V L S 6 12121 571 Q L F K T E R K K A 6 12122 44 G T P G V D I Y I S 5 12123 48 V D I Y I S P N M E 5 12124 51 Y I S P N M E R G R 5 12125 55 N M E R G R E R A D 5 12126 57 E R G R E R A D T R 5 12127 63 A D T R R W R F D A 5 12128 75 E I I V V M N S P S 5 12129 80 M N S P S N D L N D 5 12130 84 S N D L N D S H V Q 5 12131 88 N D S H V Q I S Y H 5 12132 99 S H E P L P L A Y A 5 12133 143 P S G Y G G I L L V 5 12134 144 S G Y G G I L L V N 5 12135 178 E D M S V M V L R T 5 12136 193 L F D D H K L V L H 5 12137 208 A K R A Q V F H I C 5 12138 224 E A Y R H V L G Q D 5 12139 234 K V S Y E V P R L H 5 12140 273 D D S N E D F S A S 5 12141 278 D F S A S P I F T D 5 12142 281 A S P I F T D T V V 5 12143 283 P I F T D T V V F R 5 12144 285 F T D T V V F R V A 5 12145 316 N T C F V D A V A E 5 12146 332 C K L T I C P Q A E 5 12147 341 E N R N D R W I Q D 5 12148 342 N R N D R W I Q D E 5 12149 357 V Q A P H K T L P V 5 12150 366 V V F D S P R N G E 5 12151 368 F D S P R N G E L Q 5 12152 378 D F P Y K R I L G P 5 12153 387 P D F G Y V T R E P 5 12154 393 T R E P R D R S V S 5 12155 402 S G L D S F G N L E 5 12156 418 A N G K F Y P L G R 5 12157 428 I L I G G N L P G S 5 12158 444 Q V V R D F L H A Q 5 12159 454 K V Q P P V F L F V 5 12160 476 S F V P A P D G K G 5 12161 484 K G F R M L L A S P 5 12162 487 R M L L A S P G A C 5 12163 498 K L F Q E K Q K C G 5 12164 526 I S I N Q V L S N K 5 12165 536 D L I N Y N K F V Q 5 12166 553 E V L K R E L G L A 5 12167 565 D I I D I P Q L F K 5 12168 572 L F K T E R K K A T 5 12169 580 A T A F F P D L V N 5 12170 599 I P K P F G P I I N 5 12171 600 P K P F G P I I N G 5 12172 605 P I I N G C C C L E 5 12173 620 L L E P L G L H C T 5 12174 629 T F I D D F T P Y H 5 12175 1 M S L Q R I V R V S 4 12176 4 Q R I V R V S L E H 4 12177 9 V S L E H P T S A V 4 12178 19 C V A G V E T L V D 4 12179 27 V D I Y G S V P E G 4 12180 38 E M F E V Y G T P G 4 12181 46 P G V D I Y I S P N 4 12182 64 D T R R W R F D A T 4 12183 81 N S P S N D L N D S 4 12184 106 A Y A V L Y L T C V 4 12185 111 Y L T C V D I S L D 4 12186 115 V D I S L D C D L N 4 12187 117 I S L D C D L N C E 4 12188 121 C D L N C E G R Q D 4 12189 128 R Q D R N F V D K R 4 12190 147 G G I L L V N C D R 4 12191 153 N C D R D D P S C D 4 12192 163 V Q D N C D Q H V H 4 12193 179 D M S V M V L R T Q 4 12194 183 M V L R T Q G P A A 4 12195 187 T Q G P A A L F D D 4 12196 202 H T S S Y D A K R A 4 12197 203 T S S Y D A K R A Q 4 12198 204 S S Y D A K R A Q V 4 12199 214 F H I C G P E D V C 4 12200 216 I C G P E D V C E A 4 12201 227 R H V L G Q D K V S 4 12202 238 E V P R L H G D E E 4 12203 261 F T G L I S F H V T 4 12204 264 L I S F H V T L L D 4 12205 265 I S F H V T L L D D 4 12206 286 T D T V V F R V A P 4 12207 289 V V F R V A P W I M 4 12208 291 F R V A P W I M T P 4 12209 295 P W I M T P S T L P 4 12210 296 W I M T P S T L P P 4 12211 299 T P S T L P P L E V 4 12212 307 E V Y V C R V R N N 4 12213 314 R N N T C F V D A V 4 12214 319 F V D A V A E L A R 4 12215 334 L T I C P Q A E N R 4 12216 335 T I C P Q A E N R N 4 12217 346 R W I Q D E M E L G 4 12218 369 D S P R N G E L Q D 4 12219 384 I L G P D F G Y V T 4 12220 385 L G P D F G Y V T R 4 12221 405 D S F G N L E V S P 4 12222 409 N L E V S P P V V A 4 12223 423 Y P L G R I L I G G 4 12224 424 P L G R I L I G G N 4 12225 432 G N L P G S S G R R 4 12226 433 N L P G S S G R R V 4 12227 435 P G S S G R R V T Q 4 12228 436 G S S G R R V T Q V 4 12229 437 S S G R R V T Q V V 4 12230 438 S G R R V T Q V V R 4 12231 467 A V G H V D E F L S 4 12232 473 E F L S F V P A P D 4 12233 483 G K G F R M L L A S 4 12234 496 C F K L F Q E K Q K 4 12235 510 R A L L F Q G V V D 4 12236 532 L S N K D L I N Y N 4 12237 535 K D L I N Y N K F V 4 12238 542 K F V Q S C I D W N 4 12239 548 I D W N R E V L K R 4 12240 549 D W N R E V L K R E 4 12241 554 V L K R E L G L A E 4 12242 581 T A F F P D L V N M 4 12243 585 P D L V N M L V L G 4 12244 589 N M L V L G K H L G 4 12245 593 L G K H L G I P K P 4 12246 618 R S L L E P L G L H 4 12247 632 D D F T P Y H M L H 4 12248 633 D F T P Y H M L H G 4 12249 8 R V S L E H P T S A 3 12250 13 H P T S A V C V A G 3 12251 24 E T L V D I Y G S V 3 12252 35 E G T E M F E V Y G 3 12253 50 I Y I S P N M E R G 3 12254 52 I S P N M E R G R E 3 12255 62 R A D T R R W R F D 3 12256 66 R R W R F D A T L E 3 12257 82 S P S N D L N D S H 3 12258 92 V Q I S Y H S S H E 3 12259 97 H S S H E P L P L A 3 12260 107 Y A V L Y L T C V D 3 12261 116 D I S L D C D L N C 3 12262 126 E G R Q D R N F V D 3 12263 127 G R Q D R N F V D K 3 12264 129 Q D R N F V D K R Q 3 12265 131 R N F V D K R Q W V 3 12266 145 G Y G G I L L V N C 3 12267 155 D R D D P S C D V Q 3 12268 166 N C D Q H V H C L Q 3 12269 174 L Q D L E D M S V M 3 12270 181 S V M V L R T Q G P 3 12271 186 R T Q G P A A L F D 3 12272 194 F D D H K L V L H T 3 12273 195 D D H K L V L H T S 3 12274 200 V L H T S S Y D A K 3 12275 210 R A Q V F H I C G P 3 12276 211 A Q V F H I C G P E 3 12277 220 E D V C E A Y R H V 3 12278 225 A Y R H V L G Q D K 3 12279 236 S Y E V P R L H G D 3 12280 243 H G D E E R F F V E 3 12281 248 R F F V E G L S F P 3 12282 269 V T L L D D S N E D 3 12283 292 R V A P W I M T P S 3 12284 298 M T P S T L P P L E 3 12285 303 L P P L E V Y V C R 3 12286 309 Y V C R V R N N T C 3 12287 313 V R N N T C F V D A 3 12288 318 C F V D A V A E L A 3 12289 321 D A V A E L A R K A 3 12290 326 L A R K A G C K L T 3 12291 329 K A G C K L T I C P 3 12292 353 E L G Y V Q A P H K 3 12293 354 L G Y V Q A P H K T 3 12294 358 Q A P H K T L P V V 3 12295 360 P H K T L P V V F D 3 12296 373 N G E L Q D F P Y K 3 12297 383 R I L G P D F G Y V 3 12298 390 G Y V T R E P R D R 3 12299 396 P R D R S V S G L D 3 12300 400 S V S G L D S F G N 3 12301 404 L D S F G N L E V S 3 12302 406 S F G N L E V S P P 3 12303 408 G N L E V S P P V V 3 12304 413 S P P V V A N G K E 3 12305 434 L P G S S G R R V T 3 12306 446 V R D F L H A Q K V 3 12307 448 D F L H A Q K V Q P 3 12308 461 L F V D W L A V G H 3 12309 463 V D W L A V G H V D 3 12310 475 L S F V P A P D G K 3 12311 478 V P A P D G K G F R 3 12312 482 D G K G F R M L L A 3 12313 506 C G H G R A L L F Q 3 12314 507 G H G R A L L F Q G 3 12315 512 L L F Q G V V D D E 3 12316 516 G V V D D E Q V K T 3 12317 521 E Q V K T I S I N Q 3 12318 525 T I S I N Q V L S N 3 12319 527 S I N Q V L S N K D 3 12320 537 L I N Y N K F V Q S 3 12321 547 C I D W N R E V L K 3 12322 551 N R E V L K R E L G 3 12323 556 K R E L G L A E C D 3 12324 561 L A E C D I I D I P 3 12325 566 I I D I P Q L F K T 3 12326 570 P Q L F K T E R K K 3 12327 576 E R K K A T A F F P 3 12328 579 K A T A F F P D L V 3 12329 583 F F P D L V N M L V 3 12330 586 D L V N M L V L G K 3 12331 591 L V L G K H L G I P 3 12332 595 K H L G I P K P F G 3 12333 602 P F G P I I N G C C 3 12334 609 G C C C L E E K V R 3 12335 619 S L L E P L G L H C 3 12336 624 L G L H C T F I D D 3 12337 630 F I D D F T P Y H M 3 12338 634 F T P Y H M L H G E 3 12339 637 Y H M L H G E V H C 3 12340 638 H M L H G E V H C G 3 12341 643 E V H C G T N V C R 3 12342 645 H C G T N V C R K P 3 12343 649 N V C R K P F S F K 3 12344 653 K P F S F K W W N M 3 12345 655 F S F K W W N M V P 3 12346 3 L Q R I V R V S L E 2 12347 5 R I V R V S L E H P 2 12348 10 S L E H P T S A V C 2 12349 14 P T S A V C V A G V 2 12350 15 T S A V C V A G V E 2 12351 16 S A V C V A G V E T 2 12352 22 G V E T L V D I Y G 2 12353 25 T L V D I Y G S V P 2 12354 26 L V D I Y G S V P E 2 12355 28 D I Y G S V P E G T 2 12356 32 S V P E G T E M F E 2 12357 53 S P N M E R G R E R 2 12358 54 P N M E R G R E R A 2 12359 69 R F D A T L E I I V 2 12360 86 D L N D S H V Q I S 2 12361 90 S H V Q I S Y H S S 2 12362 93 Q I S Y H S S H E P 2 12363 95 S Y H S S H E P L P 2 12364 104 P L A Y A V L Y L T 2 12365 105 L A Y A V L Y L T C 2 12366 109 V L Y L T C V D I S 2 12367 113 T C V D I S L D C D 2 12368 118 S L D C D L N C E G 2 12369 120 D C D L N C E G R Q 2 12370 133 F V D K R Q W V W G 2 12371 134 V D K R Q W V W G P 2 12372 146 Y G G I L L V N C D 2 12373 148 G I L L V N C D R D 2 12374 149 I L L V N C D R D D 2 12375 150 L L V N C D R D D P 2 12376 157 D D P S C D V Q D N 2 12377 159 P S C D V Q D N C D 2 12378 160 S C D V Q D N C D Q 2 12379 167 C D Q H V H C L Q D 2 12380 171 V H C L Q D L E D M 2 12381 175 Q D L E D M S V M V 2 12382 180 M S V M V L R T Q G 2 12383 188 Q G P A A L F D D H 2 12384 198 K L V L H T S S Y D 2 12385 209 K R A Q V F H I C G 2 12386 212 Q V F H I C G P E D 2 12387 215 H I C G P E D V C E 2 12388 222 V C E A Y R H V L G 2 12389 231 G Q D K V S Y E V P 2 12390 235 V S Y E V P R L H G 2 12391 242 L H G D E E R F F V 2 12392 244 G D E E R F F V E G 2 12393 250 F V E G L S F P D A 2 12394 253 G L S F P D A G F T 2 12395 257 P D A G F T G L I S 2 12396 266 S F H V T L L D D S 2 12397 271 L L D D S N E D F S 2 12398 284 I F T D T V V F R V 2 12399 293 V A P W I M T P S T 2 12400 304 P P L E V Y V C R V 2 12401 305 P L E V Y V C R V R 2 12402 308 V Y V C R V R N N T 2 12403 311 C R V R N N T C F V 2 12404 312 R V R N N T C F V D 2 12405 315 N N T C F V D A V A 2 12406 328 R K A G C K L T I C 2 12407 331 G C K L T I C P Q A 2 12408 336 I C P Q A E N R N D 2 12409 337 C P Q A E N R N D R 2 12410 343 R N D R W I Q D E M 2 12411 348 I Q D E M E L G Y V 2 12412 361 H K T L P V V F D S 2 12413 365 P V V F D S P R N G 2 12414 386 G P D F G Y V T R E 2 12415 391 Y V T R E P R D R S 2 12416 403 G L D S F G N L E V 2 12417 417 V A N G K E Y P L G 2 12418 427 R I L I G G N L P G 2 12419 429 L I G G N L P G S S 2 12420 439 G R R V T Q V V R D 2 12421 443 T Q V V R D F L H A 2 12422 445 V V R D F L H A Q K 2 12423 451 H A Q K V Q P P V E 2 12424 458 P V E L F V D W L A 2 12425 462 F V D W L A V G H V 2 12426 464 D W L A V G H V D E 2 12427 469 G H V D E F L S F V 2 12428 470 H V D E F L S F V P 2 12429 471 V D E F L S F V P A 2 12430 474 F L S F V P A P D G 2 12431 479 P A P D G K G F R M 2 12432 486 F R M L L A S P G A 2 12433 492 S P G A C F K L F Q 2 12434 493 P G A C F K L F Q E 2 12435 497 F K L F Q E K Q K C 2 12436 502 E K Q K C G H G R A 2 12437 509 G R A L L F Q G V V 2 12438 530 Q V L S N K D L I N 2 12439 533 S N K D L I N Y N K 2 12440 538 I N Y N K F V Q S C 2 12441 544 V Q S C I D W N R E 2 12442 559 L G L A E C D I I D 2 12443 569 I P Q L F K T E R K 2 12444 587 L V N M L V L G K H 2 12445 606 I I N G C C C L E E 2 12446 608 N G C C C L E E K V 2 12447 610 C C C L E E K V R S 2 12448 616 K V R S L L E P L G 2 12449 623 P L G L H C T F I D 2 12450 644 V H C G T N V C R K 2 12451 654 P F S F K W W N M V 2 12452 6 I V R V S L E H P T 1 12453 7 V R V S L E H P T S 1 12454 18 V C V A G V E T L V 1 12455 29 I Y G S V P H G T E 1 12456 30 Y G S V P E G T E M 1 12457 33 V P E G T E M F E V 1 12458 36 G T E M F E V Y G T 1 12459 39 M F E V Y G T P G V 1 12460 45 T P G V D I Y I S P 1 12461 47 G V D I Y I S P N M 1 12462 73 T L E I I V V M N S 1 12463 77 I V V M N S P S N D 1 12464 79 V M N S P S N D L N 1 12465 83 P S N D L N D S H V 1 12466 112 L T C V D I S L D C 1 12467 119 L D C D L N C E G R 1 12468 122 D L N C E G R Q D R 1 12469 136 K R Q W V W G P S G 1 12470 139 W V W G P S G Y G G 1 12471 152 V N C D R D D P S C 1 12472 154 C D R D D P S C D V 1 12473 158 D P S C D V Q D N C 1 12474 161 C D V Q D N C D Q H 1 12475 162 D V Q D N C D Q H V 1 12476 164 Q D N C D Q H V H C 1 12477 169 Q H V H C L Q D L E 1 12478 170 H V H C L Q D L E D 1 12479 172 H C L Q D L E D M S 1 12480 173 C L Q D L E D M S V 1 12481 182 V M V L R T Q G P A 1 12482 196 D H K L V L H T S S 1 12483 199 L V L H T S S Y D A 1 12484 201 L H T S S Y D A K R 1 12485 206 Y D A K R A Q V F H 1 12486 213 V F H I C G P E D V 1 12487 218 G P E D V C E A Y R 1 12488 226 Y R H V L G Q D K V 1 12489 229 V L G Q D K V S Y E 1 12490 230 L G Q D K V S Y E V 1 12491 232 Q D K V S Y E V P R 1 12492 239 V P R L H G D E E R 1 12493 260 G F T G L I S F H V 1 12494 267 F H V T L L D D S N 1 12495 268 H V T L L D D S N E 1 12496 272 L D D S N E D F S A 1 12497 279 F S A S P I F T D T 1 12498 290 V F R V A P W I M T 1 12499 320 V D A V A E L A R K 1 12500 323 V A E L A R K A G C 1 12501 333 K L T I C P Q A E N 1 12502 344 N D R W I Q D E M E 1 12503 349 Q D E M E L G Y V Q 1 12504 356 Y V Q A P H K T L P 1 12505 363 T L P V V F D S P R 1 12506 371 P R N G E L Q D F P 1 12507 379 F P Y K R I L G P D 1 12508 381 Y K R I L G P D F G 1 12509 388 D F G Y V T R E P R 1 12510 392 V T R E P R D R S V 1 12511 397 R D R S V S G L D S 1 12512 407 F G N L E V S P P V 1 12513 430 I G G N L P G S S G 1 12514 431 G G N L P G S S G R 1 12515 442 V T Q V V R D F L H 1 12516 449 F L H A Q K V Q P P 1 12517 485 G F R M L L A S P G 1 12518 489 L L A S P G A C F K 1 12519 494 G A C F K L F Q E K 1 12520 508 H G R A L L F Q G V 1 12521 513 L F Q G V V D D E Q 1 12522 514 F Q G V V D D E Q V 1 12523 515 Q G V V D D E Q V K 1 12524 518 V D D E Q V K T I S 1 12525 545 Q S C I D W N R E V 1 12526 555 L K R E L G L A E C 1 12527 568 D I P Q L F K T E R 1 12528 573 F K T E R K K A T A I 12529 577 R K K A T A F F P D 1 12530 592 V L G K H L G I P K 1 12531 596 H L G I P K P F G P 1 12532 603 F G P I I N G C C C 1 12533 607 I N G C C C L E E K 1 12534 626 L H C T F I D D F T 1 12535 627 H C T F I D D F T P 1 12536 636 P Y H M L H G E V H 1 12537 639 M L H G E V H C G T 1 12538 640 L H G E V H C G T N 1 12539 652 R K P F S F K W W N 1 12540 184P1E2 v.2: HLA Peptide Scoring Results B4402 10-mers SYFPEITHI 3 I M T P S T L A P L 14 12541 6 P S T L A P L E V Y 13 12542 2 W I M T P S T L A P 6 12543 8 T L A P L E V Y V C 5 12544 10 A P L E V Y V C R V 5 12545 1 P W I M T P S T L A 4 12546 5 T P S T L A P L E V 4 12547

TABLE XLVII 184P1E2: HLA Peptide Scoring Results B5101 10-mers SYFPEITHI SEQ. Pos 1 2 3 4 5 6 7 8 9 score ID No Data

TABLE XLVIII SEQ. Pos 1 2 3 4 5 6 7 8 9 0 1 2 3 4 5 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results DRB1*0101 15-mers SYFPEITHI 258 D A G F T G L I S F H V T L L 33 12548 378 D F P Y K R I L G P D F G Y V 33 12549 179 D M S V M V L R T Q G P A A L 32 12550 23 V E T L V D I Y G S V P E G T 31 12551 182 V M V L R T Q G P A A L F D D 31 12552 423 Y P L G R I L I G G N L P G S 29 12553 483 G K G F R M L L A S P G A C F 29 12554 211 A Q V F H I C G P E D V C E A 28 12555 287 D T V V F R V A P W I M T P S 28 12556 37 T E M F E V Y G T P G V D I Y 27 12557 65 T R R W R F D A T L E I I V V 27 12558 104 P L A Y A V L Y L T C V D I S 27 12559 316 N T C F V D A V A E L A R K A 27 12560 404 L D S F G N L E V S P P V V A 27 12561 475 L S F V P A P D G K G F R M L 27 12562 594 G K H L G I P K P F G P I I N 27 12563 634 F T P Y H M L H G E V H C G T 27 12564 203 T S S Y D A K R A Q V F H I C 26 12565 223 C E A Y R H V L G Q D K V S Y 26 12566 286 T D T V V F R V A P W I M T P 26 12567 293 V A P W I M T P S T L P P L E 26 12568 444 Q V V R D F L H A Q K V Q P P 26 12569 581 T A F F P D L V N M L V L G K 26 12570 596 H L G I P K P F G P I I N G C 26 12571 615 E K V R S L L E P L G L H C T 26 12572 45 T P G V D I Y I S P N M E R G 25 12573 71 D A T L E I I V V M N S P S N 25 12574 171 V H C L Q D L E D M S V M V L 25 12575 323 V A E L A R K A G C K L T I C 25 12576 431 G G N L P G S S G R R V T Q V 25 12577 484 K G F R M L L A S P G A C F K 25 12578 6 I V R V S L E H P T S A V C V 24 12579 39 M F E V Y G T P G V D I Y I S 24 12580 106 A Y A V L Y L T C V D I S L D 24 12581 181 S V M V L R T Q G P A A L F D 24 12582 236 S Y E V P R L H G D E E R F F 24 12583 245 D E E R F F V E G L S F P D A 24 12584 248 R F F V E G L S F P D A G F T 24 12585 395 E P R D R S V S G L D S F G N 24 12586 398 D R S V S G L D S F G N L E V 24 12587 424 P L G R I L I G G N L P G S S 24 12588 460 E L F V D W L A V G H V D E F 24 12589 486 F R M L L A S P G A C F K L F 24 12590 586 D L V N M L V L G K H L G I P 24 12591 3 L Q R I V R V S L E H P T S A 23 12592 36 G T E M F E V Y G T P G V D I 23 12593 292 R V A P W I M T P S T L P P L 23 12594 439 G R R V T Q V V R D F L H A Q 23 12595 472 D E F L S F V P A P D G K G F 23 12596 520 D E Q V K T I S I N Q V L S N 23 12597 73 T L E I I V V M N S P S N D L 22 12598 76 I I V V M N S P S N D L N D S 22 12599 91 H V Q I S Y H S S H E P L P L 22 12600 174 L Q D L E D M S V M V L R T Q 22 12601 197 H K L V L H T S S Y D A K R A 22 12602 210 R A Q V F H I C G P E D V C E 22 12603 253 G L S F P D A G F T G L I S F 22 12604 294 A P W I M T P S T L P P L E V 22 12605 297 I M T P S T L P P L E V Y V C 22 12606 351 E M E L G Y V Q A P H K T L P 22 12607 407 F G N L E V S P P V V A N G K 22 12608 427 R I L I G G N L P G S S G R R 22 12609 447 R D F L H A Q K V Q P P V E L 22 12610 465 W L A V G H V D E F L S F V P 22 12611 468 V G H V D E F L S F V P A P D 22 12612 525 T I S I N Q V L S N K D L I N 22 12613 628 C T F I D D F T P Y H M L H G 22 12614 17 A V C V A G V E T L V D I Y G 21 12615 74 L E I I V V M N S P S N D L N 21 12616 138 Q W V W G P S G Y G G I L L V 21 12617 450 L H A Q K V Q P P V E L F V D 21 12618 459 V E L F V D W L A V G H V D E 21 12619 537 L I N Y N K F V Q S C I D W N 21 12620 569 I P Q L F K T E R K K A T A F 21 12621 87 L N D S H V Q I S Y H S S H E 20 12622 278 D F S A S P I F T D T V V F R 20 12623 353 E L G Y V Q A P H K T L P V V 20 12624 376 L Q D F P Y K R I L G P D F G 20 12625 379 F P Y K R I L G P D F G Y V T 20 12626 406 S F G N L E V S P P V V A N G 20 12627 506 C G H G R A L L F Q G V V D D 20 12628 517 V V D D E Q V K T I S I N Q V 20 12629 588 V N M L V L G K H L G I P K P 20 12630 112 L T C V D I S L D C D L N C E 19 12631 246 E E R F F V E G L S F P D A G 19 12632 282 S P I F T D T V V F R V A P W 19 12633 319 F V D A V A E L A R K A G C K 19 12634 388 D F G Y V T R E P R D R S V S 19 12635 551 N R E V L K R E L G L A E C D 19 12636 574 K T E R K K A T A F F P D L V 19 12637 585 P D L V N M L V L G K H L G I 19 12638 591 L V L G K H L G I P K P F G P 19 12639 5 R I V R V S L E H P T S A V C 18 12640 21 A G V E T L V D I Y G S V P E 18 12641 24 E T L V D I Y G S V P E G T E 18 12642 28 D I Y G S V P E G T E M F E V 18 12643 67 R W R F D A T L E I I V V M N 18 12644 93 Q I S Y H S S H E P L P L A Y 18 12645 108 A V L Y L T C V D I S L D C D 18 12646 137 R Q W V W G P S G Y G G I L L 18 12647 180 M S V M V L R T Q G P A A L F 18 12648 193 L F D D H K L V L H T S S Y D 18 12649 224 E A Y R H V L G Q D K V S Y E 18 12650 239 V P R L H G D E E R F F V E G 18 12651 264 L I S F H V T L L D D S N E D 18 12652 266 S F H V T L L D D S N E D F S 18 12653 365 P V V F D S P R N G E L Q D F 18 12654 413 S P P V V A N G K E Y P L G R 18 12655 426 G R I L I G G N L P G S S G R 18 12656 446 V R D F L H A Q K V Q P P V E 18 12657 501 Q E K Q K C G H G R A L L F Q 18 12658 556 K R E L G L A E C D I I D I P 18 12659 573 F K T E R K K A T A F F P D L 18 12660 580 A T A F F P D L V N M L V L G 18 12661 590 M L V L G K H L G I P K P F G 18 12662 614 E E K V R S L L E P L G L H C 18 12663 15 T S A V C V A G V E T L V D I 17 12664 68 W R F D A T L E I I V V M N S 17 12665 72 A T L E I I V V M N S P S N D 17 12666 81 N S P S N D L N D S H V Q I S 17 12667 84 S N D L N D S H V Q I S Y H S 17 12668 98 S S H E P L P L A Y A V L Y L 17 12669 100 H E P L P L A Y A V L Y L T C 17 12670 107 Y A V L Y L T C V D I S L D C 17 12671 132 N F V D K R Q W V W G P S G Y 17 12672 136 K R Q W V W G P S G Y G G I L 17 12673 140 V W G P S G Y G G I L L V N C 17 12674 148 G I L L V N C D R D D P S C D 17 12675 149 I L L V N C D R D D P S C D V 17 12676 183 M V L R T Q G P A A L F D D H 17 12677 194 F D D H K L V L H T S S Y D A 17 12678 200 V L H T S S Y D A K R A Q V F 17 12679 247 E R F F V E G L S F P D A G F 17 12680 251 V E G L S F P D A G F T G L I 17 12681 261 F T G L I S F H V T L L D D S 17 12682 290 V F R V A P W I M T P S T L P 17 12683 295 P W I M T P S T L P P L E V Y 17 12684 300 P S T L P P L E V Y V C R V R 17 12685 320 V D A V A E L A R K A G C K L 17 12686 343 R N D R W I Q D E M E L G Y V 17 12687 348 I Q D E M E L G Y V Q A P H K 17 12688 349 Q D E M E L G Y V Q A P H K T 17 12689 354 L G Y V Q A P H K T L P V V F 17 12690 363 T L P V V F D S P R N G E L Q 17 12691 373 N G E L Q D F P Y K R I L G P 17 12692 389 F G Y V T R E P R D R S V S G 17 12693 401 V S G L D S F G N L E V S P P 17 12694 418 A N G K E Y P L G R I L I G G 17 12695 419 N G K E Y P L G R I L I G G N 17 12696 455 V Q P P V E L F V D W L A V G 17 12697 456 Q P P V E L F V D W L A V G H 17 12698 462 F V D W L A V G H V D E F L S 17 12699 469 G H V D E F L S F V P A P D G 17 12700 487 R M L L A S P G A C F K L F Q 17 12701 507 G H G R A L L F Q G V V D D E 17 12702 515 Q G V V D D E Q V K T I S I N 17 12703 526 I S I N Q V L S N K D L I N Y 17 12704 535 K D L I N Y N K F V Q S C I D 17 12705 548 I D W N R E V L K R E L G L A 17 12706 552 R E V L K R E L G L A E C D I 17 12707 561 L A E C D I I D I P Q L F K T 17 12708 562 A E C D I I D I P Q L F K T E 17 12709 566 I I D I P Q L F K T E R K K A 17 12710 572 L F K T E R K K A T A F F P D 17 12711 584 F P D L V N M L V L G K H L G 17 12712 587 L V N M L V L G K H L G I P K 17 12713 601 K P F G P I I N G C C C L E E 17 12714 618 R S L L E P L G L H C T F I D 17 12715 620 L L E P L G L H C T F I D D F 17 12716 639 M L H G E V H C G T N V C R K 17 12717 9 V S L E H P T S A V C V A G V 16 12718 12 E H P T S A V C V A G V E T L 16 12719 20 V A G V E T L V D I Y G S V P 16 12720 26 L V D I Y G S V P E G T E M F 16 12721 27 V D I Y G S V P E G T E M F E 16 12722 29 I Y G S V P E G T E M F E V Y 16 12723 75 E I I V V M N S P S N D L N D 16 12724 97 H S S H E P L P L A Y A V L Y 16 12725 99 S H E P L P L A Y A V L Y L T 16 12726 139 W V W G P S G Y G G I L L V N 16 12727 143 P S G Y G G I L L V N C D R D 16 12728 152 V N C D R D D P S C D V Q D N 16 12729 160 S C D V Q D N C D Q H V H C L 16 12730 168 D Q H V H C L Q D L E D M S V 16 12731 190 P A A L F D D H K L V L H T S 16 12732 196 D H K L V L H T S S Y D A K R 16 12733 219 P E D V C E A Y R H V L G Q D 16 12734 229 V L G Q D K V S Y E V P R L H 16 12735 255 S F P D A G F T G L I S F H V 16 12736 268 H V T L L D D S N E D F S A S 16 12737 269 V T L L D D S N E D F S A S P 16 12738 273 D D S N E D F S A S P I F T D 16 12739 357 V Q A P H K T L P V V F D S P 16 12740 381 Y K R I L G P D F G Y V T R E 16 12741 382 K R I L G P D F G Y V T R E P 16 12742 386 G P D F G Y V T R E P R D R S 16 12743 405 D S F G N L E V S P P V V A N 16 12744 410 L E V S P P V V A N G K E Y P 16 12745 414 P P V V A N G K E Y P L G R I 16 12746 422 E Y P L G R I L I G G N L P G 16 12747 428 I L I G G N L P G S S G R R V 16 12748 438 S G R R V T Q V V R D F L H A 16 12749 452 A Q K V Q P P V E L F V D W L 16 12750 463 V D W L A V G H V D E F L S F 16 12751 471 V D E F L S F V P A P D G K G 16 12752 477 F V P A P D G K G F R M L L A 16 12753 503 K Q K C G H G R A L L F Q G V 16 12754 509 G R A L L F Q G V V D D E Q V 16 12755 511 A L L F Q G V V D D E Q V K T 16 12756 532 L S N K D L I N Y N K F V Q S 16 12757 555 L K R E L G L A E C D I I D I 16 12758 558 E L G L A E C D I I D I P Q L 16 12759 589 N M L V L G K H L G I P K P F 16 12760 592 V L G K H L G I P K P F G P I 16 12761 600 P K P F G P I I N G C C C L E 16 12762 610 C C C L E E K V R S L L E P L 16 12763 617 V R S L L E P L G L H C T F I 16 12764 623 P L G L H C T F I D D F T P Y 16 12765 625 G L H C T F I D D F T P Y H M 16 12766 627 H C T F I D D F T P Y H M L H 16 12767 644 V H C G T N V C R K P F S F K 16 12768 14 P T S A V C V A G V E T L V D 15 12769 88 N D S H V Q I S Y H S S H E P 15 12770 94 I S Y H S S H E P L P L A Y A 15 12771 109 V L Y L T C V D I S L D C D L 15 12772 146 Y G G I L L V N C D R D D P S 15 12773 169 Q H V H C L Q D L E D M S V M 15 12774 177 L E D M S V M V L R T Q G P A 15 12775 232 Q D K V S Y E V P R L H G D E 15 12776 262 T G L I S F H V T L L D D S N 15 12777 272 L D D S N E D F S A S P I F T 15 12778 274 D S N E D F S A S P I F T D T 15 12779 280 S A S P I F T D T V V F R V A 15 12780 283 P I F T D T V V F R V A P W I 15 12781 284 I F T D T V V F R V A P W I M 15 12782 309 Y V C R V R N N T C F V D A V 15 12783 314 R N N T C F V D A V A E L A R 15 12784 346 R W I Q D E M E L G Y V Q A P 15 12785 385 L G P D F G Y V T R E P R D R 15 12786 457 P P V E L F V D W L A V G H V 15 12787 485 G F R M L L A S P G A C F K L 15 12788 516 G V V D D E Q V K T I S I N Q 15 12789 577 R K K A T A F F P D L V N M L 15 12790 582 A F F P D L V N M L V L G K H 15 12791 621 L E P L G L H C T F I D D F T 15 12792 646 C G T N V C R K P F S F K W W 15 12793 7 V R V S L E H P T S A V C V A 14 12794 8 R V S L E H P T S A V C V A G 14 12795 42 V Y G T P G V D I Y I S P N M 14 12796 123 L N C E G R Q D R N F V D K R 14 12797 134 V D K R Q W V W G P S G Y G G 14 12798 163 V Q D N C D Q H V H C L Q D L 14 12799 173 C L Q D L E D M S V M V L R T 14 12800 195 D D H K L V L H T S S Y D A K 14 12801 226 Y R H V L G Q D K V S Y E V P 14 12802 228 H V L G Q D K V S Y E V P R L 14 12803 254 L S F P D A G F T G L I S F H 14 12804 302 T L P P L E V Y V C R V R N N 14 12805 307 E V Y V C R V R N N T C F V D 14 12806 317 T C F V D A V A E L A R K A G 14 12807 327 A R K A G C K L T I C P Q A E 14 12808 333 K L T I C P Q A E N R N D R W 14 12809 355 G Y V Q A P H K T L P V V F D 14 12810 360 P H K T L P V V F D S P R N G 14 12811 361 H K T L P V V F D S P R N G E 14 12812 435 P G S S G R R V T Q V V R D F 14 12813 449 F L H A Q K V Q P P V E L F V 14 12814 482 D G K G F R M L L A S P G A C 14 12815 512 L L F Q G V V D D E Q V K T I 14 12816 522 Q V K T I S I N Q V L S N K D 14 12817 538 I N Y N K F V Q S C I D W N R 14 12818 563 E C D I I D I P Q L F K T E R 14 12819 611 C C L E E K V R S L L E P L G 14 12820 633 D F T P Y H M L H G E V H C G 14 12821 352 M E L G Y V Q A P H K T L P V 13 12822 494 G A C F K L F Q E K Q K C G H 13 12823 46 P G V D I Y I S P N M F R G R 12 12824 234 K V S Y E V P R L H G D E E R 12 12825 279 F S A S P I F T D T V V F R V 12 12826 288 T V V F R V A P W I M T P S T 12 12827 291 F R V A P W I M T P S T L P P 12 12828 330 A G C K L T I C P Q A E N R N 12 12829 331 G C K L T I C P Q A E N R N D 12 12830 393 T R E P R D R S V S G L D S F 12 12831 425 L G R I L I G G N L P G S S G 12 12832 474 F L S F V P A P D G K G F R M 12 12833 497 F K L F Q E K Q K C G H G R A 12 12834 521 E Q V K T I S I N Q V L S N K 12 12835 533 S N K D L I N Y N K F V Q S C 12 12836 543 F V Q S C I D W N R E V L K R 12 12837 547 C I D W N R E V L K R E L G L 12 12838 550 W N R E V L K R E L G L A E C 12 12839 564 C D I I D I P Q L F K T E R K 12 12840 570 P Q L F K T E R K K A T A F F 12 12841 602 P F G P I I N G C C C L E E K 12 12842 1 M S L Q R I V R V S L E H P T 11 12843 40 F E V Y G T P G V D I Y I S P 11 12844 47 G V D I Y I S P N M E R G R E 11 12845 49 D I Y I S P N M E R G R E R A 11 12846 51 Y I S P N M E R G R E R A D T 11 12847 89 D S H V Q I S Y H S S H E P L 11 12848 130 D R N F V D K R Q W V W G P S 11 12849 144 S G Y G G I L L V N C D R D D 11 12850 225 A Y R H V L G Q D K V S Y E V 11 12851 244 G D E E R F F V E G L S F P D 11 12852 260 G F T G L I S F H V T L L D D 11 12853 306 L E V Y V C R V R N N T C F V 11 12854 308 V Y V C R V R N N T C F V D A 11 12855 344 N D R W I Q D E M E L G Y V Q 11 12856 368 F D S P R N G E L Q D F P Y K 11 12857 390 G Y V T R E P R D R S V S G L 11 12858 420 G K E Y P L G R I L I G G N L 11 12859 429 L I G G N L P G S S G R R V T 11 12860 493 P G A C F K L F Q E K Q K C G 11 12861 499 L F Q E K Q K C G H G R A L L 11 12862 500 F Q E K Q K C G H G R A L L F 11 12863 514 F Q G V V D D E Q V K T I S I 11 12864 523 V K T I S I N Q V L S N K D L 11 12865 540 Y N K F V Q S C I D W N R E V 11 12866 553 E V L K R E L G L A E C D I I 11 12867 631 I D D F T P Y H M L H G E V H 11 12868 648 T N V C R K P F S F K W W N M 11 12869 4 Q R I V R V S L E H P T S A V 10 12870 16 S A V C V A G V E T L V D I Y 10 12871 48 V D I Y I S P N M E R G R E R 10 12872 63 A D T R R W R F D A T L E I I 10 12873 69 R F D A T L E I I V V M N S P 10 12874 117 I S L D C D L N C E G R Q D R 10 12875 119 L D C D L N C E G R Q D R N F 10 12876 120 D C D L N C E G R Q D R N F V 10 12877 131 R N F V D K R Q W V W G P S G 10 12878 133 F V D K R Q W V W G P S G Y G 10 12879 188 Q G P A A L F D D H K L V L H 10 12880 189 G P A A L F D D H K L V L H T 10 12881 191 A A L F D D H K L V L H T S S 10 12882 208 A K R A Q V F H I C G P E D V 10 12883 218 G P E D V C E A Y R H V L G Q 10 12884 231 G Q D K V S Y E V P R L H G D 10 12885 243 H G D E E R F F V E G L S F P 10 12886 250 F V E G L S F P D A G F T G L 10 12887 256 F P D A G F T G L I S F H V T 10 12888 276 N E D F S A S P I F T D T V V 10 12889 310 V C R V R N N T C F V D A V A 10 12890 328 R K A G C K L T I C P Q A E N 10 12891 329 K A G C K L T I C P Q A E N R 10 12892 345 D R W I Q D E M E L G Y V Q A 10 12893 359 A P H K T L P V V F D S P R N 10 12894 364 L P V V F D S P R N G E L Q D 10 12895 374 G E L Q D F P Y K R I L G P D 10 12896 412 V S P P V V A N G K E Y P L G 10 12897 416 V V A N G K E Y P L G R I L I 10 12898 443 T Q V V R D F L H A Q K V Q P 10 12899 478 V P A P D G K G F R M L L A S 10 12900 479 P A P D G K G F R M L L A S P 10 12901 527 S I N Q V L S N K D L I N Y N 10 12902 607 I N G C C C L E E K V R S L L 10 12903 608 N G C C C L E E K V R S L L E 10 12904 637 Y H M L H G E V H C G T N V C 10 12905 643 E V H C G T N V C R K P F S F 10 12906 31 G S V P E G T E M F E V Y G T 9 12907 35 E G T E M F E V Y G T P G V D 9 12908 41 E V Y G T P G V D I Y I S P N 9 12909 52 I S P N M E R G R E R A D T R 9 12910 53 S P N M E R G R E R A D T R R 9 12911 61 E R A D T R R W R F D A T L E 9 12912 64 D T R R W R F D A T L E I I V 9 12913 77 I V V M N S P S N D L N D S H 9 12914 114 C V D I S L D C D L N C E G R 9 12915 122 D L N C E G R Q D R N F V D K 9 12916 128 R Q D R N F V D K R Q W V W G 9 12917 135 D K R Q W V W G P S G Y G G I 9 12918 141 W G P S G Y G G I L L V N C D 9 12919 145 G Y G G I L L V N C D R D D P 9 12920 147 G G I L L V N C D R D D P S C 9 12921 172 H C L Q D L E D M S V M V L R 9 12922 178 E D M S V M V L R T Q G P A A 9 12923 205 S Y D A K R A Q V F H I C G P 9 12924 213 V F H I C G P E D V C E A Y R 9 12925 217 C G P E D V C E A Y R H V L G 9 12926 240 P R L H G D E E R F F V E G L 9 12927 265 I S F H V T L L D D S N E D F 9 12928 270 T L L D D S N E D F S A S P I 9 12929 289 V V F R V A P W I M T P S T L 9 12930 303 L P P L E V Y V C R V R N N T 9 12931 305 P L E V Y V C R V R N N T C F 9 12932 311 C R V R N N T C F V D A V A E 9 12933 312 R V R N N T C F V D A V A E L 9 12934 313 V R N N T C F V D A V A E L A 9 12935 325 E L A R K A G C K L T I C P Q 9 12936 337 C P Q A E N R N D R W I Q D E 9 12937 347 W I Q D E M E L G Y V Q A P H 9 12938 358 Q A P H K T L P V V F D S P R 9 12939 369 D S P R N G E L Q D F P Y K R 9 12940 396 P R D R S V S G L D S F G N L 9 12941 399 R S V S G L D S F G N L E V S 9 12942 402 S G L D S F G N L E V S P P V 9 12943 417 V A N G K E Y P L G R I L I G 9 12944 434 L P G S S G R R V T Q V V R D 9 12945 441 R V T Q V V R D F L H A Q K V 9 12946 442 V T Q V V R D F L H A Q K V Q 9 12947 451 H A Q K V Q P P V E L F V D W 9 12948 461 L F V D W L A V G H V D E F L 9 12949 464 D W L A V G H V D E F L S F V 9 12950 466 L A V G H V D E F L S F V P A 9 12951 467 A V G H V D E F L S F V P A P 9 12952 470 H V D E F L S F V P A P D G K 9 12953 480 A P D G K G F R M L L A S P G 9 12954 481 P D G K G F R M L L A S P G A 9 12955 488 M L L A S P G A C F K L F Q E 9 12956 489 L L A S P G A C F K L F Q E K 9 12957 495 A C F K L F Q E K Q K C G H G 9 12958 496 C F K L F Q E K Q K C G H G R 9 12959 502 E K Q K C G H G R A L L F Q G 9 12960 508 H G R A L L F Q G V V D D E Q 9 12961 519 D D E Q V K T I S I N Q V L S 9 12962 531 V L S N K D L I N Y N K F V Q 9 12963 554 V L K R E L G L A E C D I I D 9 12964 571 Q L F K T E R K K A T A F F P 9 12965 579 K A T A F F P D L V N M L V L 9 12966 604 G P I I N G C C C L E E K V R 9 12967 606 I I N G C C C L E E K V R S L 9 12968 609 G C C C L E E K V R S L L E P 9 12969 612 C L E E K V R S L L E P L G L 9 12970 613 L E E K V R S L L E P L G L H 9 12971 619 S L L E P L G L H C T F I D D 9 12972 629 T F I D D F T P Y H M L H G E 9 12973 636 P Y H M L H G E V H C G T N V 9 12974 645 H C G T N V C R K P F S F K W 9 12975 10 S L E H P T S A V C V A G V E 8 12976 13 H P T S A V C V A G V E T L V 8 12977 18 V C V A G V E T L V D I Y G S 8 12978 22 G V E T L V D I Y G S V P E G 8 12979 30 Y G S V P E G T E M F E V Y G 8 12980 43 Y G T P C V D I Y I S P N M e 8 12981 55 N M E R G R E R A D T R R W R 8 12982 59 G R E R A D T R R W R F D A T 8 12983 66 R R W R F D A T L E I I V V M 8 12984 79 V M N S P S N D L N D S H V Q 8 12985 83 P S N D L N D S H V Q I S Y H 8 12986 92 V Q I S Y H S S H E P L P L A 8 12987 95 S Y H S S H E P L P L A Y A V 8 12988 101 E P L P L A Y A V L Y L T C V 8 12989 102 P L P L A Y A V L Y L T C V D 8 12990 105 L A Y A V L Y L T C V D I S L 8 12991 113 T C V D I S L D C D L N C E G 8 12992 116 D I S L D C D L N C E G R Q D 8 12993 129 Q D R N F V D K R Q W V W G P 8 12994 166 N C D Q H V H C L Q D L E D M 8 12995 170 H V H C L Q D L E D M S V M V 8 12996 184 V L R T Q G P A A L F D D H K 8 12997 187 T Q G P A A L F D D H K L V L 8 12998 198 K L V L H T S S Y D A K R A Q 8 12999 202 H T S S Y D A K R A Q V F H I 8 13000 206 Y D A K R A Q V F H I C G P E 8 13001 214 F H I C G P E D V C E A Y R H 8 13002 227 R H V L G Q D K V S Y E V P R 8 13003 238 E V P R L H G D E E R F F V E 8 13004 252 E G L S F P D A G F T G L I S 8 13005 271 L L D D S N E D F S A S P I F 8 13006 281 A S P I F T D T V V F R V A P 8 13007 299 T P S T L P P L E V Y V C R V 8 13008 315 N N T C F V D A V A E L A R K 8 13009 322 A V A E L A R K A G C K L T I 8 13010 332 C K L T I C P Q A E N R N D R 8 13011 341 E N R N D R W I Q D E M E L G 8 13012 342 N R N D R W I Q D E M E L G Y 8 13013 356 Y V Q A P H K T L P V V F D S 8 13014 366 V V F D S P R N G E L Q D F P 8 13015 370 S P R N G E L Q D F P Y K R I 8 13016 391 Y V T R E P R D R S V S G L D 8 13017 400 S V S G L D S F G N L E V S P 8 13018 403 G L D S F G N L E V S P P V V 8 13019 409 N L E V S P P V V A N G K E Y 8 13020 436 G S S G R R V T Q V V R D F L 8 13021 448 D F L H A Q K V Q P P V E L F 8 13022 458 P V E L F V D W L A V G H V D 8 13023 473 E F L S F V P A P D G K G F R 8 13024 498 K L F Q E K Q K C G H G R A L 8 13025 510 R A L L F Q G V V D D E Q V K 8 13026 528 I N Q V L S N K D L I N Y N K 8 13027 529 N Q V L S N K D L I N Y N K F 8 13028 534 N K D L I N Y N K F V Q S C I 8 13029 541 N K F V Q S C I D W N R E V L 8 13030 544 V Q S C I D W N R E V L K R E 8 13031 545 Q S C I D W N R E V L K R E L 8 13032 549 D W N R E V L K R E L G L A E 8 13033 559 L G L A E C D I I D I P Q L F 8 13034 576 E R K K A T A F F P D L V N M 8 13035 595 K H L G I P K P F G P I I N G 8 13036 597 L G I P K P F G P I I N G C C 8 13037 603 F G P I I N G C C C L E E K V 8 13038 640 L H G E V H C G T N V C R K P 8 13039 641 H G E V H C G T N V C R K P F 8 13040 647 G T N V C R K P F S F K W W N 8 13041 33 V P E G T E M F E V Y G T P G 7 13042 38 E M F E V Y G T P G V D I Y I 7 13043 44 G T P G V D I Y I S P N M E R 7 13044 50 I Y I S P N M E R G R E R A D 7 13045 57 E R G R E R A D T R R W R F D 7 13046 82 S P S N D L N D S H V Q I S Y 7 13047 111 Y L T C V D I S L D C D L N C 7 13048 249 F F V E G L S F P D A G F T G 7 13049 259 A G F T G L I S F H V T L L D 7 13050 267 F H V T L L D D S N E D F S A 7 13051 304 P P L E V Y V C R V R N N T C 7 13052 362 K T L P V V F D S P R N G E L 7 13053 371 P R N G E L Q D F P Y K R I L 7 13054 372 R N G E L Q D F P Y K R I L G 7 13055 411 E V S P P V V A N G K E Y P L 7 13056 453 Q K V Q P P V E L F V D W L A 7 13057 565 D I I D I P Q L F K T E R K K 7 13058 567 I D I P Q L F K T E R K K A T 7 13059 2 S L Q R I V R V S L E H P T S 6 13060 70 F D A T L E I I V V M N S P S 6 13061 86 D L N D S H V Q I S Y H S S H 6 13062 90 S H V Q I S Y H S S H E P L P 6 13063 96 Y H S S H E P L P L A Y A V L 6 13064 103 L P L A Y A V L Y L T C V D I 6 13065 110 L Y L T C V D I S L D C D L N 6 13066 151 L V N C D R D D P S C D V Q D 6 13067 157 D D P S C D V Q D N C D Q H V 6 13068 158 D P S C D V Q D N C D Q H V H 6 13069 165 D N C D Q H V H C L Q D L E D 6 13070 176 D L E D M S V M V L R T Q G P 6 13071 207 D A K R A Q V F H I C G P E D 6 13072 216 I C G P E D V C E A Y R H V L 6 13073 233 D K V S Y E V P R L H G D E E 6 13074 263 G L I S F H V T L L D D S N E 6 13075 275 S N E D F S A S P I F T D T V 6 13076 296 W I M T P S T L P P L E V Y V 6 13077 324 A E L A R K A G C K L T I C P 6 13078 392 V T R E P R D R S V S G L D S 6 13079 394 R E P R D R S V S G L D S F G 6 13080 430 I G G N L P G S S G R R V T Q 6 13081 440 R R V T Q V V R D F L H A Q K 6 13082 524 K T I S I N Q V L S N K D L I 6 13083 539 N Y N K F V Q S C I D W N R E 6 13084 542 K F V Q S C I D W N R E V L K 6 13085 560 G L A E C D I I D I P Q L F K 6 13086 593 L G K H L G I P K P F G P I I 6 13087 638 H M L H G E V H C G T N V C R 6 13088 34 P E G T E M F E V Y G T P G V 4 13089 237 Y E V P R L H G D E E R F F V 4 13090 626 L H C T F I D D F T P Y H M L 4 13091 54 P N M E R G R E R A D T R R W 3 13092 56 M E R G R E R A D T R R W R F 3 13093 58 R G R E R A D T R R W R F D A 3 13094 127 G R Q D R N F V D K R Q W V W 3 13095 321 D A V A E L A R K A G C K L T 3 13096 380 P Y K R I L G P D F G Y V T R 3 13097 530 Q V L S N K D L I N Y N K F V 3 13098 568 D I P Q L F K T E R K K A T A 3 13099 62 R A D T R R W R F D A T L E I 2 13100 124 N C E G R Q D R N F V D K R Q 2 13101 199 L V L H T S S Y D A K R A Q V 2 13102 204 S S Y D A K R A Q V F H I C G 2 13103 209 K R A Q V F H I C G P E D V C 2 13104 221 D V C E A Y R H V L G Q D K V 2 13105 298 M T P S T L P P L E V Y V C R 2 13106 334 L T I C P Q A E N R N D R W I 2 13107 339 Q A E N R N D R W I Q D E M E 2 13108 377 Q D F P Y K R I L G P D F G Y 2 13109 384 I L G P D F G Y V T R E P R D 2 13110 415 P V V A N G K E Y P L G R I L 2 13111 421 K E Y P L G R I L I G G N L P 2 13112 432 G N L P G S S G R R V T Q V V 2 13113 437 S S G R R V T Q V V R D F L H 2 13114 445 V V R D F L H A Q K V Q P P V 2 13115 546 S C I D W N R E V L K R E L G 2 13116 599 I P K P F G P I I N G C C C L 2 13117 632 D D F T P Y H M L H G E V H C 2 13118 635 T P Y H M L H G E V H C G T N 2 13119 649 N V C R K P F S F K W W N M V 2 13120 11 L E H P T S A V C V A G V E T 1 13121 19 C V A G V E T L V D I Y G S V 1 13122 60 R E R A D T R R W R F D A T L 1 13123 118 S L D C D L N C E G R Q D R N 1 13124 126 E G R Q D R N F V D K R Q W V 1 13125 159 P S C D V Q D N C D Q H V H C 1 13126 162 D V Q D N C D Q H V H C L Q D 1 13127 167 C D Q H V H C L Q D L E D M S 1 13128 175 Q D L E D M S V M V L R T Q G 1 13129 201 L H T S S Y D A K R A Q V F H 1 13130 230 L G Q D K V S Y E V P R L H G 1 13131 235 V S Y E V P R L H G D E E R F 1 13132 277 E D F S A S P I F T D T V V F 1 13133 285 F T D T V V F R V A P W I M T 1 13134 301 S T L P P L E V Y V C R V R N 1 13135 318 C F V D A V A E L A R K A G C 1 13136 326 L A R K A G C K L T I C P Q A 1 13137 338 P Q A E N R N D R W I Q D E M 1 13138 340 A E N R N D R W I Q D E M E L 1 13139 367 V F D S P R N G E L Q D F P Y 1 13140 383 R I L G P D F G Y V T R E P R 1 13141 397 R D R S V S G L D S F G N L E 1 13142 408 G N L E V S P P V V A N G K E 1 13143 476 S F V P A P D G K G F R M L L 1 13144 492 S P G A C F K L F Q E K Q K C 1 13145 513 L F Q G V V D D E Q V K T I S 1 13146 575 T E R K K A T A F F P D L V N 1 13147 578 K K A T A F F P D L V N M L V 1 13148 598 G I P K P F G P I I N G C C C 1 13149 616 K V R S L L E P L G L H C T F 1 13150 650 V C R K P F S F K W W N M V P 1 13151 184P1E2 v.2: HLA Peptide Scoring Results DRB1*0101 15-mers SYFPEITHI 4 V A P W I M T P S T L A P L E 26 13152 3 R V A P W I M T P S T L A P L 23 13153 5 A P W I M T P S T L A P L E V 22 13154 8 I M T P S T L A P L E V Y V C 22 13155 1 V F R V A P W I M T P S T L A 17 13156 6 P W I M T P S T L A P L E V Y 17 13157 11 P S T L A P L E V Y V C R V R 17 13158 13 T L A P L E V Y V C R V R N N 14 13159 2 F R V A P W I M T P S T L A P 12 13160 14 L A P L E V Y V C R V R N N T 9 13161 7 W I M T P S T L A P L E V Y V 8 13162 10 T P S T L A P L E V Y V C R V 8 13163 15 A P L E V Y V C R V R N N T C 7 13164 9 M T P S T L A P L E V Y V C R 2 13165 12 S T L A P L E V Y V C R V R N 1 13166 184P1E2 v.3: HLA Peptide Scoring Results DRB1*0101 15-mers SYFPEITHI 10 L S F V P V P D G K G F R M L 27 13167 12 F V P V P D G K G F R M L L A 24 13168 3 V G H V D E F L S F V P V P D 22 13169 9 F L S F V P V P D G K G F R M 18 13170 4 G H V D E F L S F V P V P D G 17 13171 6 V D E F L S F V P V P D G K G 16 13172 7 D E F L S F V P V P D G K G F 15 13173 13 V P V P D G K G F R M L L A S 10 13174 14 P V P D G K G F R M L L A S P 10 13175 1 L A V G H V D E F L S F V P V 9 13176 2 A V G H V D E F L S F V P V P 9 13177 5 H V D E F L S F V P V P D G K 9 13178 15 V P D G K G F R M L L A S P G 9 13179 8 E F L S F V P V P D G K G F R 8 13180 11 S F V P V P D G K G F R M L L 2 13181

TABLE XLIX SEQ. Pos 1 2 3 4 5 6 7 8 9 0 1 2 3 4 5 score ID NO. 184P1E2 v.1: HLA Peptide Scoring Results DRB1 0301 15-mers SYFPEITHI 268 H V T L L D D S N E D F S A S 37 13182 190 P A A L F D D H K L V L H T S 35 13183 239 V P R L H G D E E R F F V E G 35 13184 514 F Q G V V D D E Q V K T I S I 30 13185 580 A T A F F P D L V N M L V L G 29 13186 116 D I S L D C D L N C E G R Q D 27 13187 226 Y R H V L G Q D K V S Y E V P 27 13188 610 C C C L E E K V R S L L E P L 26 13189 219 P E D V C E A Y R H V L G Q D 25 13190 345 D R W I Q D E M E L G Y V Q A 25 13191 414 P P V V A N G K E Y P L G R I 25 13192 439 G R R V T Q V V R D F L H A Q 25 13193 114 C V D I S L D C D L N C E G R 23 13194 363 T L P V V F D S P R N G E L Q 23 13195 365 P V V F D S P R N G E L Q D F 23 13196 182 V M V L R T Q G P A A L F D D 22 13197 442 V T Q V V R D F L H A Q K V Q 22 13198 486 F R M L L A S P G A C F K L F 22 13199 100 H E P L P L A Y A V L Y L T C 21 13200 227 R H V L G Q D K V S Y E V P R 21 13201 261 F T G L I S F H V T L L D D S 21 13202 281 A S P I F T D T V V F R V A P 21 13203 382 K R I L G P D F G Y V T R E P 21 13204 399 R S V S G L D S F G N L E V S 21 13205 458 P V E L F V D W L A V G H V D 21 13206 562 A E C D I I D I P Q L F K T E 21 13207 76 I I V V M N S P S N D L N D S 20 13208 149 I L L V N C D R D D P S C D V 20 13209 215 H I C G P E D V C E A Y R H V 20 13210 295 P W I M T P S T L P P L E V Y 20 13211 425 L G R I L I G G N L P G S S G 20 13212 466 L A V G H V D E F L S F V P A 20 13213 587 L V N M L V L G K H L G I P K 20 13214 614 E E K V R S L L E P L G L H C 20 13215 15 T S A V C V A G V E T L V D I 19 13216 77 I V V M N S P S N D L N D S H 19 13217 112 L T C V D I S L D C D L N C E 19 13218 170 H V H C L Q D L E D M S V M V 19 13219 174 L Q D L E D M S V M V L R T Q 19 13220 315 N N T C F V D A V A E L A R K 19 13221 323 V A E L A R K A G C K L T I C 19 13222 331 G C K L T I C P Q A E N R N D 19 13223 401 V S G L D S F G N L E V S P P 19 13224 529 N Q V L S N K D L I N Y N K F 19 13225 563 E C D I I D I P Q L F K T E R 19 13226 627 H C T F I D D F T P Y H M L H 19 13227 4 Q R I V R V S L E H P T S A V 18 13228 120 D C D L N C E G R Q D R N F V 18 13229 129 Q D R N F V D K R Q W V W G P 18 13230 180 M S V M V L R T Q G P A A L F 18 13231 317 T C F V D A V A E L A R K A G 18 13232 320 V D A V A E L A R K A G C K L 18 13233 333 K L T I C P Q A E N R N D R W 18 13234 364 L P V V F D S P R N G E L Q D 18 13235 389 F G Y V T R E P R D R S V S G 18 13236 413 S P P V V A N G K E Y P L G R 18 13237 452 A Q K V Q P P V E L F V D W L 18 13238 463 V D W L A V G H V D E F L S F 18 13239 475 L S F V P A P D G K G F R M L 18 13240 476 S F V P A P D G K G F R M L L 18 13241 513 L F Q G V V D D E Q V K T I S 18 13242 545 Q S C I D W N R E V L K R E L 18 13243 569 I P Q L F K T E R K K A T A F 18 13244 623 P L G L H C T F I D D F T P Y 18 13245 626 L H C T F I D D F T P Y H M L 18 13246 30 Y G S V P E G T E M F E V Y G 17 13247 47 G V D I Y I S P N M E R G R E 17 13248 49 D I Y I S P N M E R G R E R A 17 13249 53 S P N M E R G R E R A D T R R 17 13250 58 R G R E R A D T R R W R F D A 17 13251 73 T L E I I V V M N S P S N D L 17 13252 80 M N S P S N D L N D S H V Q I 17 13253 124 N C E G R Q D R N F V D K R Q 17 13254 148 G I L L V N C D R D D P S C D 17 13255 156 R D D P S C D V Q D N C D Q H 17 13256 201 L H T S S Y D A K R A Q V F H 17 13257 253 G L S F P D A G F T G L I S F 17 13258 307 E V Y V C R V R N N T C F V D 17 13259 354 L G Y V Q A P H K T L P V V F 17 13260 446 V R D F L H A Q K V Q P P V E 17 13261 465 W L A V G H V D E F L S F V P 17 13262 496 C F K L F Q E K Q K C G H G R 17 13263 502 E K Q K C G H G R A L L F Q G 17 13264 534 N K D L I N Y N K F V Q S C I 17 13265 548 I D W N R E V L K R E L G L A 17 13266 550 W N R E V L K R E L G L A E C 17 13267 641 H G E V H C G T N V C R K P F 17 13268 238 E V P R L H G D E E R F F V E 16 13269 269 V T L L D D S N E D F S A S P 16 13270 494 G A C F K L F Q E K Q K C G H 16 13271 521 E Q V K T I S I N Q V L S N K 16 13272 543 F V Q S C I D W N R E V L K R 16 13273 566 I I D I P Q L F K T E R K K A 16 13274 570 P Q L F K T E R K K A T A F F 16 13275 67 R W R F D A T L E I I V V M N 15 13276 85 N D L N D S H V Q I S Y H S S 15 13277 130 D R N F V D K R Q W V W G P S 15 13278 308 V Y V C R V R N N T C F V D A 15 13279 479 P A P D G K G F R M L L A S P 15 13280 485 G F R M L L A S P G A C F K L 15 13281 497 F K L F Q E K Q K C G H G R A 15 13282 526 I S I N Q V L S N K D L I N Y 15 13283 528 I N Q V L S N K D L I N Y N K 15 13284 544 V Q S C I D W N R E V L K R E 15 13285 581 T A F F P D L V N M L V L G K 15 13286 600 P K P F G P I I N G C C C L E 15 13287 617 V R S L L E P L G L H C T F I 15 13288 644 V H C G T N V C R K P F S F K 15 13289 59 G R E R A D T R R W R F D A T 14 13290 75 E I I V V M N S P S N D L N D 14 13291 83 P S N D L N D S H V Q I S Y H 14 13292 173 C L Q D L E D M S V M V L R T 14 13293 267 F H V T L L D D S N E D F S A 14 13294 343 R N D R W I Q D E M E L G Y V 14 13295 374 G E L Q D F P Y K R I L G P D 14 13296 386 G P D F G Y V T R E P R D R S 14 13297 509 G R A L L F Q G V V D D E Q V 14 13298 551 N R E V L K R E L G L A E C D 14 13299 552 R E V L K R E L G L A E C D I 14 13300 588 V N M L V L G K H L G I P K P 14 13301 106 A Y A V L Y L T C V D I S L D 13 13302 146 Y G G I L L V N C D R D D P S 13 13303 181 S V M V L R T Q G P A A L F D 13 13304 189 G P A A L F D D H K L V L H T 13 13305 197 H K L V L H T S S Y D A K R A 13 13306 250 F V E G L S F P D A G F T G L 13 13307 266 S F H V T L L D D S N E D F S 13 13308 344 N D R W I Q D E M E L G Y V Q 13 13309 349 Q D E M E L G Y V Q A P H K T 13 13310 372 R N G E L Q D F P Y K R I L G 13 13311 409 N L E V S P P V V A N G K E Y 13 13312 443 T Q V V R D F L H A Q K V Q P 13 13313 520 D E Q V K T I S I N Q V L S N 13 13314 525 T I S I N Q V L S N K D L I N 13 13315 584 F P D L V N M L V L G K H L G 13 13316 636 P Y H M L H G E V H C G T N V 13 13317 3 L Q R I V R V S L E H P T S A 12 13318 17 A V C V A G V E T L V D I Y G 12 13319 22 G V E T L V D I Y G S V P E G 12 13320 24 E T L V D I Y G S V P E G T E 12 13321 39 M F E V Y G T P G V D I Y I S 12 13322 65 T R R W R F D A T L E I I V V 12 13323 96 Y H S S H E P L P L A Y A V L 12 13324 99 S H E P L P L A Y A V L Y L T 12 13325 109 V L Y L T C V D I S L D C D L 12 13326 147 G G I L L V N C D R D D P S C 12 13327 152 V N C D R D D P S C D V Q D N 12 13328 183 M V L R T Q G P A A L F D D H 12 13329 196 D H K L V L H T S S Y D A K R 12 13330 198 K L V L H T S S Y D A K R A Q 12 13331 213 V F H I C G P E D V C E A Y R 12 13332 262 T G L I S F H V T L L D D S N 12 13333 272 L D D S N E D F S A S P I F T 12 13334 294 A P W I M T P S T L P P L E V 12 13335 300 P S T L P P L E V Y V C R V R 12 13336 381 Y K R I L G P D F G Y V T R E 12 13337 407 F G N L E V S P P V V A N G K 12 13338 447 R D F L H A Q K V Q P P V E L 12 13339 456 Q P P V E L F V D W L A V G H 12 13340 468 V G H V D E F L S F V P A P D 12 13341 471 V D E F L S F V P A P D G K G 12 13342 474 F L S F V P A P D G K G F R M 12 13343 487 R M L L A S P G A C F K L F Q 12 13344 530 Q V L S N K D L I N Y N K F V 12 13345 535 K D L I N Y N K F V Q S C I D 12 13346 541 N K F V Q S C I D W N R E V L 12 13347 556 K R E L G L A E C D I I D I P 12 13348 585 P D L V N M L V L G K H L G I 12 13349 589 N M L V L G K H L G I P K P F 12 13350 603 F G P I I N G C C C L E E K V 12 13351 609 G C C C L E E K V R S L L E P 12 13352 618 R S L L E P L G L H C T F I D 12 13353 6 I V R V S L E H P T S A V C V 11 13354 8 R V S L E H P T S A V C V A G 11 13355 19 C V A G V E T L V D I Y G S V 11 13356 23 V E T L V D I Y G S V P E G T 11 13357 29 I Y G S V P E G T E M F E V Y 11 13358 36 G T E M F E V Y G T P G V D I 11 13359 45 T P G V D I Y I S P N M E R G 11 13360 71 D A T L E I I V V M N S P S N 11 13361 74 L E I I V V M N S P S N D L N 11 13362 84 S N D L N D S H V Q I S Y H S 11 13363 91 H V Q I S Y H S S H E P L P L 11 13364 94 I S Y H S S H E P L P L A Y A 11 13365 101 E P L P L A Y A V L Y L T C V 11 13366 102 P L P L A Y A V L Y L T C V D 11 13367 107 Y A V L Y L T C V D I S L D C 11 13368 110 L Y L T C V D I S L D C D L N 11 13369 131 R N F V D K R Q W V W G P S G 11 13370 137 R Q W V W G P S G Y G G I L L 11 13371 159 P S C D V Q D N C D Q H V H C 11 13372 160 S C D V Q D N C D Q H V H C L 11 13373 162 D V Q D N C D Q H V H C L Q D 11 13374 168 D Q H V H C L Q D L E D M S V 11 13375 171 V H C L Q D L E D M S V M V L 11 13376 179 D M S V M V L R T Q G P A A L 11 13377 191 A A L F D D H K L V L H T S S 11 13378 231 G Q D K V S Y E V P R L H G D 11 13379 232 Q D K V S Y E V P R L H G D E 11 13380 247 E R F F V E G L S F P D A G F 11 13381 248 R F F V E G L S F P D A G F T 11 13382 252 E G L S F P D A G F T G L I S 11 13383 260 G F T G L I S F H V T L L D D 11 13384 286 T D T V V F R V A P W I M T P 11 13385 290 V F R V A P W I M T P S T L P 11 13386 298 M T P S T L P P L E V Y V C R 11 13387 299 T P S T L P P L E V Y V C R V 11 13388 305 P L E V Y V C R V R N N T C F 11 13389 310 V C R V R N N T C F V D A V A 11 13390 339 Q A E N R N D R W I Q D E M E 11 13391 368 F D S P R N G E L Q D F P Y K 11 13392 373 N G E L Q D F P Y K R I L G P 11 13393 380 P Y K R I L G P D F G Y V T R 11 13394 392 V T R E P R D R S V S G L D S 11 13395 422 E Y P L G R I L I G G N L P G 11 13396 426 G R I L I G G N L P G S S G R 11 13397 427 R I L I G G N L P G S S G R R 11 13398 431 G G N L P G S S G R R V T Q V 11 13399 450 L H A Q K V Q P P V E L F V D 11 13400 451 H A Q K V Q P P V E L F V D W 11 13401 459 V E L F V D W L A V G H V D E 11 13402 472 D E F L S F V P A P D G K G F 11 13403 483 G K G F R M L L A S P G A C F 11 13404 495 A C F K L F Q E K Q K C G H G 11 13405 523 V K T I S I N Q V L S N K D L 11 13406 532 L S N K D L I N Y N K F V Q S 11 13407 558 E L G L A E C D I I D I P Q L 11 13408 564 C D I I D I P Q L F K T E R K 11 13409 590 M L V L G K H L G I P K P F G 11 13410 594 G K H L G I P K P F G P I I N 11 13411 604 G P I I N G C C C L E E K V R 11 13412 615 E K V R S L L E P L G L H C T 11 13413 621 L E P L G L H C T F I D D F T 11 13414 631 I D D F T P Y H M L H G E V H 11 13415 647 G T N V C R K P F S F K W W N 11 13416 20 V A G V E T L V D I Y G S V P 10 13417 26 L V D I Y G S V P E G T E M F 10 13418 43 Y G T P G V D I Y I S P N M E 10 13419 63 A D T R R W R F D A T L E I I 10 13420 89 D S H V Q I S Y H S S H E P L 10 13421 108 A V L Y L T C V D I S L D C D 10 13422 140 V W G P S G Y G G I L L V N C 10 13423 151 L V N C D R D D P S C D V Q D 10 13424 177 L E D M S V M V L R T Q G P A 10 13425 188 Q G P A A L F D D H K L V L H 10 13426 195 D D H K L V L H T S S Y D A K 10 13427 210 R A Q V F H I C G P E D V C E 10 13428 236 S Y E V P R L H G D E E R F F 10 13429 245 D E E R F F V E G L S F P D A 10 13430 251 V E G L S F P D A G F T G L I 10 13431 280 S A S P I F T D T V V F R V A 10 13432 287 D T V V F R V A P W I M T P S 10 13433 288 T V V F R V A P W I M T P S T 10 13434 303 L P P L E V Y V C R V R N N T 10 13435 316 N T C F V D A V A E L A R K A 10 13436 351 E M E L G Y V Q A P H K T L P 10 13437 353 E L G Y V Q A P H K T L P V V 10 13438 357 V Q A P H K T L P V V F D S P 10 13439 361 H K T L P V V F D S P R N G E 10 13440 378 D F P Y K R I L G P D F G Y V 10 13441 393 T R E P R D R S V S G L D S F 10 13442 398 D R S V S G L D S F G N L E V 10 13443 423 Y P L G R I L I G G N L P G S 10 13444 455 V Q P P V E L F V D W L A V G 10 13445 460 E L F V D W L A V G H V D E F 10 13446 488 M L L A S P G A C F K L F Q E 10 13447 501 Q E K Q K C G H G R A L L F Q 10 13448 503 K Q K C G H G R A L L F Q G V 10 13449 510 R A L L F Q G V V D D E Q V K 10 13450 515 Q G V V D D E Q V K T I S I N 10 13451 522 Q V K T I S I N Q V L S N K D 10 13452 559 L G L A E C D I I D I P Q L F 10 13453 571 Q L F K T E R K K A T A F F P 10 13454 572 L F K T E R K K A T A F F P D 10 13455 573 F K T E R K K A T A F F P D L 10 13456 582 A F F P D L V N M L V L G K H 10 13457 586 D L V N M L V L G K H L G I P 10 13458 596 H L G I P K P F G P I I N G C 10 13459 602 P F G P I I N G C C C L E E K 10 13460 613 L E E K V R S L L E P L G L H 10 13461 619 S L L E P L G L H C T F I D D 10 13462 628 C T F I D D F T P Y H M L H G 10 13463 637 Y H M L H G E V H C G T N V C 10 13464 646 C G T N V C R K P F S F K W W 10 13465 33 V P E G T E M F E V Y G T P G 9 13466 37 T E M F E V Y G T P G V D I Y 9 13467 40 F E V Y G T P G V D I Y I S P 9 13468 54 P N M E R G R E R A D T R R W 9 13469 92 V Q I S Y H S S H E P L P L A 9 13470 122 D L N C E G R Q D R N F V D K 9 13471 135 D K R Q W V W G P S G Y G G I 9 13472 139 W V W G P S G Y G G I L L V N 9 13473 166 N C D Q H V H C L Q D L E D M 9 13474 167 C D Q H V H C L Q D L E D M S 9 13475 178 E D M S V M V L R T Q G P A A 9 13476 203 T S S Y D A K R A Q V F H I C 9 13477 211 A Q V F H I C G P E D V C E A 9 13478 233 D K V S Y E V P R L H G D E E 9 13479 246 E E R F F V E G L S F P D A G 9 13480 256 F P D A C F T C L I S F H V T 9 13481 258 D A G F T G L I S F H V T L L 9 13482 264 L I S F H V T L L D D S N E D 9 13483 276 N E D F S A S P I F T D T V V 9 13484 282 S P I F T D T V V F R V A P W 9 13485 284 I F T D T V V F R V A P W I M 9 13486 306 L E V Y V C R V R N N T C F V 9 13487 350 D E M E L G Y V Q A P H K T L 9 13488 370 S P R N G E L Q D F P Y K R I 9 13489 375 E L Q D F P Y K R I L G P D F 9 13490 376 L Q D F P Y K R I L G P D F G 9 13491 396 P R D R S V S G L D S F G N L 9 13492 404 L D S F G N L E V S P P V V A 9 13493 412 V S P P V V A N G K E Y P L G 9 13494 418 A N G K E Y P L G R I L I G G 9 13495 419 N G K E Y P L G R I L I G G N 9 13496 438 S G R R V T Q V V R D F L H A 9 13497 464 D W L A V G H V D E F L S F V 9 13498 478 V P A P D G K G F R M L L A S 9 13499 489 L L A S P G A C F K L F Q E K 9 13500 527 S I N Q V L S N K D L I N Y N 9 13501 540 Y N K F V Q S C I D W N R E V 9 13502 568 D I P Q L F K T E R K K A T A 9 13503 592 V L G K H L G I P K P F G P I 9 13504 593 L G K H L G I P K P F G P I I 9 13505 608 N G C C C L E E K V R S L L E 9 13506 629 T F I D D F T P Y H M L H G E 9 13507 635 T P Y H M L H G E V H C G T N 9 13508 16 S A V C V A G V E T L V D I Y 8 13509 27 V D I Y G S V P E G T E M F E 8 13510 32 S V P E G T E M F E V Y G T P 8 13511 52 I S P N M E R G R E R A D T R 8 13512 93 Q I S Y H S S H E P L P L A Y 8 13513 145 G Y G G I L L V N C D R D D P 8 13514 163 V Q D N C D Q H V H C L Q D L 8 13515 202 H T S S Y D A K R A Q V F H I 8 13516 212 Q V F H I C G P E D V C E A Y 8 13517 224 E A Y R H V L G Q D K V S Y E 8 13518 230 L G Q D K V S Y E V P R L H G 8 13519 243 H G D E E R F F V E G L S F P 8 13520 244 G D E E R F F V E G L S F P D 8 13521 274 D S N E D F S A S P I F T D T 8 13522 292 R V A P W I M T P S T L P P L 8 13523 304 P P L E V Y V C R V R N N T C 8 13524 321 D A V A E L A R K A G C K L T 8 13525 325 E L A R K A G C K L T I C P Q 8 13526 334 L T I C P Q A E N R N D R W I 8 13527 367 V F D S P R N G E L Q D F P Y 8 13528 403 G L D S F G N L E V S P P V V 8 13529 432 G N L P G S S G R R V T Q V V 8 13530 433 N L P G S S G R R V T Q V V R 8 13531 436 G S S G R R V T Q V V R D F L 8 13532 511 A L L F Q G V V D D E Q V K T 8 13533 531 V L S N K D L I N Y N K F V Q 8 13534 533 S N K D L I N Y N K F V Q S C 8 13535 549 D W N R E V L K R E L G L A E 8 13536 555 L K R E L G L A E C D I I D I 8 13537 561 L A E C D I I D I P Q L F K T 8 13538 576 E R K K A T A F F P D L V N M 8 13539 606 I I N G C C C L E E K V R S L 8 13540 50 I Y I S P N M E R G R E R A D 7 13541 61 E R A D T R R W R F D A T L E 7 13542 118 S L D C D L N C E G R Q D R N 7 13543 121 C D L N C E G R Q D R N F V D 7 13544 123 L N C E G R Q D R N F V D K R 7 13545 204 S S Y D A K R A Q V F H I C G 7 13546 216 I C G P E D V C E A Y R H V L 7 13547 240 P R L H G D E E R F F V E G L 7 13548 335 T I C P Q A E N R N D R W I Q 7 13549 336 I C P Q A E N K N D R W I Q D 7 13550 369 D S P R N G E L Q D F P Y K R 7 13551 391 Y V T R E P R D R S V S G L D 7 13552 411 E V S P P V V A N G K E Y P L 7 13553 445 V V R D F L H A Q K V Q P P V 7 13554 490 L A S P G A C F K L F Q E K Q 7 13555 493 P G A C F K L F Q E K Q K C G 7 13556 507 G H G R A L L F Q G V V D D E 7 13557 516 G V V D D E Q V K T I S I N Q 7 13558 607 I N G C C C L E E K V R S L L 7 13559 128 R Q D R N F V D K R Q W V W G 6 13560 158 D P S C D V Q D N C D Q H V H 6 13561 161 C D V Q D N C D Q H V H C L Q 6 13562 338 P Q A E N R N D R W I Q D E M 6 13563 341 E N R N D R W I Q D E M E L G 6 13564 387 P D F G Y V T R E P R D R S V 6 13565 448 D F L H A Q K V Q P P V E L F 6 13566 537 L I N Y N K F V Q S C I D W N 6 13567 645 H C G T N V C R K P F S F K W 6 13568 650 V C R K P F S F K W W N M V P 6 13569 7 V R V S L E H P T S A V C V A 5 13570 408 G N L E V S P P V V A N G K E 5 13571 424 P L G R I L I G G N L P G S S 5 13572 616 K V R S L L E P L G L H C T F 5 13573 11 L E H P T S A V C V A G V E T 4 13574 70 F D A T L E I I V V M N S P S 4 13575 199 L V L H T S S Y D A K R A Q V 4 13576 293 V A P W I M T P S T L P P L E 4 13577 330 A G C K L T I C P Q A E N R N 4 13578 395 E P R D R S V S G L D S F G N 4 13579 400 S V S G L D S F G N L E V S P 4 13580 406 S F G N L E V S P P V V A N G 4 13581 430 I G G N L P G S S G R R V T Q 4 13582 457 P P V E L F V D W L A V G H V 4 13583 462 F V D W L A V G H V D E F L S 4 13584 508 H G R A L L F Q G V V D D E Q 4 13585 553 E V L K R E L G L A F C D I I 4 13586 583 F F P D L V N M L V L G K H L 4 13587 5 R I V R V S L E H P T S A V C 3 13588 9 V S L E H P T S A V C V A G V 3 13589 46 P G V D I Y I S P N M E R G R 3 13590 69 R F D A T L E I I V V M N S P 3 13591 78 V V M N S P S N D L N D S H V 3 13592 97 H S S H E P L P L A Y A V L Y 3 13593 98 S S H E P L P L A Y A V L Y L 3 13594 105 L A Y A V L Y L T C V D I S L 3 13595 113 T C V D I S L D C D L N C E G 3 13596 115 V D I S L D C D L N C E G R Q 3 13597 119 L D C D L N C E G R Q D R N F 3 13598 141 W G P S G Y G G I L L V N C D 3 13599 143 P S G Y G G I L L V N C D R D 3 13600 175 Q D L E D M S V M V L R T Q G 3 13601 194 F D D H K L V L H T S S Y D A 3 13602 223 C E A Y R H V L G Q D K V S Y 3 13603 235 V S Y E V P R L H G D E E R F 3 13604 237 Y E V P R L H G D E E R F F V 3 13605 296 W I M T P S T L P P L E V Y V 3 13606 302 T L P P L E V Y V C R V R N N 3 13607 319 F V D A V A E L A R K A G C K 3 13608 322 A V A E L A R K A G C K L T I 3 13609 324 A E L A R K A G C K L T I C P 3 13610 348 I Q D E M E L G Y V Q A P H K 3 13611 355 G Y V Q A P H K T L P V V F D 3 13612 358 Q A P H K T L P V V F D S P R 3 13613 360 P H K T L P V V F D S P R N G 3 13614 397 R D R S V S G L D S F G N L E 3 13615 417 V A N G K E Y P L G R I L I G 3 13616 480 A P D G K G F R M L L A S P G 3 13617 506 C G H G R A L L F Q G V V D D 3 13618 546 S C I D W N R E V L K R E L G 3 13619 565 D I I D I P Q L F K T E R K K 3 13620 591 L V L G K H L C I P K P F G P 3 13621 595 K H L G I P K P F G P I I N G 3 13622 597 L G I P K P F G P I I N G C C 3 13623 612 C L E E K V R S L L E P L G L 3 13624 640 L H G E V H C G T N V C R K P 3 13625 649 N V C R K P F S F K W W N M V 3 13626 1 M S L Q R I V R V S L E H P T 2 13627 2 S L Q R I V R V S L E H P T S 2 13628 14 P T S A V C V A G V E T L V D 2 13629 21 A G V E T L V D I Y G S V P E 2 13630 25 T L V D I Y G S V P E G T E M 2 13631 34 P E G T E M F E V Y G T P G V 2 13632 41 E V Y G T P G V D I Y I S P N 2 13633 48 V D I Y I S P N M E R G R E R 2 13634 56 M E R G R E R A D T R R W R F 2 13635 62 R A D T R R W R F D A T L E I 2 13636 72 A T L E I I V V M N S P S N D 2 13637 79 V M N S P S N D L N D S H V Q 2 13638 88 N D S H V Q I S Y H S S H E P 2 13639 90 S H V Q I S Y H S S H E P L P 2 13640 95 S Y H S S H E P L P L A Y A V 2 13641 103 L P L A Y A V L Y L T C V D I 2 13642 111 Y L T C V D I S L D C D L N C 2 13643 136 K R Q W V W G P S G Y G G I L 2 13644 138 Q W V W G P S G Y G G I L L V 2 13645 144 S G Y G G I L L V N C D R D D 2 13646 154 C D R D D P S C D V Q D N C D 2 13647 155 D R D D P S C D V Q D N C D Q 2 13648 176 D L E D M S V M V L R T Q G P 2 13649 192 A L F D D H K L V L H T S S Y 2 13650 220 E D V C E A Y R H V L G Q D K 2 13651 225 A Y R H V L G Q D K V S Y E V 2 13652 242 L H G D E E R F F V E G L S F 2 13653 249 F F V E G L S F P D A G F T G 2 13654 259 A G F T G L I S F H V T L L D 2 13655 265 I S F H V T L L D D S N E D F 2 13656 270 T L L D D S N E D F S A S P I 2 13657 275 S N E D F S A S P I F T D T V 2 13658 285 F T D T V V F R V A P W I M T 2 13659 297 I M T P S T L P P L E V Y V C 2 13660 301 S T L P P L E V Y V C R V R N 2 13661 313 V R N N T C F V D A V A E L A 2 13662 314 R N N T C F V D A V A E L A R 2 13663 318 C F V D A V A E L A R K A G C 2 13664 329 K A G C K L T I C P Q A E N R 2 13665 332 C K L T I C P Q A E N R N D R 2 13666 346 R W I Q D E M E L G Y V Q A P 2 13667 347 W I Q D E M E L G Y V Q A P H 2 13668 359 A P H K T L P V V F D S P R N 2 13669 366 V V F D S P R N G E L Q D F P 2 13670 379 F P Y K R I L G P D F G Y V T 2 13671 383 R I L G P D F G Y V T R E P R 2 13672 388 D F G Y V T R E P R D R S V S 2 13673 390 G Y V T R E P R D R S V S G L 2 13674 410 L E V S P P V V A N G K E Y P 2 13675 415 P V V A N G K E Y P L G R I L 2 13676 420 G K E Y P L G R I L I G G N L 2 13677 421 K E Y P L G R I L I G G N L P 2 13678 429 L I G G N L P G S S G R R V T 2 13679 437 S S G R R V T Q V V R D F L H 2 13680 441 R V T Q V V R D F L H A Q K V 2 13681 444 Q V V R D F L H A Q K V Q P P 2 13682 453 Q K V Q P P V E L F V D W L A 2 13683 454 K V Q P P V E L F V D W L A V 2 13684 469 G H V D E F L S F V P A P D G 2 13685 470 H V D E F L S F V P A P D G K 2 13686 481 P D G K G F R M L L A S P G A 2 13687 482 D G K G F R M L L A S P G A C 2 13688 492 S P G A C F K L F Q E K Q K C 2 13689 519 D D E Q V K T I S I N Q V L S 2 13690 524 K T I S I N Q V L S N K D L I 2 13691 554 V L K R E L G L A E C D I I D 2 13692 557 R E L G L A E C D I I D I P Q 2 13693 567 I D I P Q L F K T E R K K A T 2 13694 577 R K K A T A F F P D L V N M L 2 13695 578 K K A T A F F P D L V N M L V 2 13696 579 K A T A F F P D L V N N L V L 2 13697 598 G I P K P F G P I I N G C C C 2 13698 611 C C L E E K V R S L L E P L G 2 13699 620 L L E P L G L H C T F I D D F 2 13700 622 E P L G L H C T F I D D F T P 2 13701 648 T N V C R K P F S F K W W N M 2 13702 12 E H P T S A V C V A G V E T L 1 13703 18 V C V A G V E T L V D I Y G S 1 13704 28 D I Y G S V P E G T E M F E V 1 13705 31 G S V P E G T E M F E V Y G T 1 13706 38 E M F E V Y G T P G V D I Y I 1 13707 44 G T P G V D I Y I S P N M E R 1 13708 51 Y I S P N M E R G R E R A D T 1 13709 64 D T R R W R F D A T L E I I V 1 13710 68 W R F D A T L E I I V V M N S 1 13711 82 S P S N D L N D S H V Q I S Y 1 13712 125 C E G R Q D R N F V D K R Q W 1 13713 126 E G R Q D R N F V D K R Q W V 1 13714 127 G R Q D R N F V D K R Q W V W 1 13715 132 N F V D K R Q W V W G P S G Y 1 13716 133 F V D K R Q W V W G P S G Y G 1 13717 142 G P S G Y G G I L L V N C D R 1 13718 153 N C D R D D P S C D V Q D N C 1 13719 157 D D P S C D V Q D N C D Q H V 1 13720 164 Q D N C D Q H V H C L Q D L E 1 13721 165 D N C D Q H V H C L Q D L E D 1 13722 169 Q H V H C L Q D L E D M S V M 1 13723 172 H C L Q D L E D M S V M V L R 1 13724 184 V L R T Q G P A A L F D D H K 1 13725 185 L R T Q G P A A L F D D H K L 1 13726 186 R T Q G P A A L F D D H K L V 1 13727 200 V L H T S S Y D A K R A Q V F 1 13728 205 S Y D A K R A Q V F H I C G P 1 13729 206 Y D A K R A Q V F H I C G P E 1 13730 209 K R A Q V F H I C G P E D V C 1 13731 214 F H I C G P E D V C E A Y R H 1 13732 217 C G P E D V C E A Y R H V L G 1 13733 218 G P E D V C E A Y R H V L G Q 1 13734 221 D V C E A Y R H V L G Q D K V 1 13735 229 V L G Q D K V S Y E V P R L H 1 13736 241 R L H G D E E R F F V E G L S 1 13737 254 L S F P D A G F T G L I S F H 1 13738 255 S F P D A G F T G L I S F H V 1 13739 257 P D A G F T G L I S F H V T L 1 13740 263 G L I S F H V T L L D D S N E 1 13741 271 L L D D S N E D F S A S P I F 1 13742 273 D D S N E D F S A S P I F T D 1 13743 277 E D F S A S P I F T D T V V F 1 13744 278 D F S A S P I F T D T V V F R 1 13745 289 V V F R V A P W I M T P S T L 1 13746 309 Y V C R V R N N T C F V D A V 1 13747 311 C R V R N N T C F V D A V A E 1 13748 312 R V R N N T C F V D A V A E L 1 13749 326 L A R K A G C K L T I C P Q A 1 13750 327 A R K A G C K L T I C P Q A E 1 13751 340 A E N R N D R W I Q D E M E L 1 13752 342 N R N D R W I Q D E M E L G Y 1 13753 352 M E L G Y V Q A P H K T L P V 1 13754 362 K T L P V V F D S P R N G E L 1 13755 371 P R N G E L Q D F P Y K R I L 1 13756 394 R E P R D R S V S G L D S F G 1 13757 405 D S F G N L E V S P P V V A N 1 13758 416 V V A N G K E Y P L G R I L I 1 13759 428 I L I G G N L P G S S G R R V 1 13760 435 P G S S G R R V T Q V V R D F 1 13761 440 R R V T Q V V R D F L H A Q K 1 13762 461 L F V D W L A V G H V D E F L 1 13763 467 A V G H V D E F L S F V P A P 1 13764 477 F V P A P D G K G F R M L L A 1 13765 484 K C F R M L L A S P G A C F K 1 13766 491 A S P G A C F K L F Q E K Q K 1 13767 498 K L F Q E K Q K C G H G R A L 1 13768 499 L F Q E K Q K C G H G R A L L 1 13769 500 F Q E K Q K C G H G R A L L F 1 13770 504 Q K C G H G R A L L F Q G V V 1 13771 505 K C G H G R A L L F Q G V V D 1 13772 517 V V D D E Q V K T I S I N Q V 1 13773 536 D L I N Y N K F V Q S C I D W 1 13774 538 I N Y N K F V Q S C I D W N R 1 13775 539 N Y N K F V Q S C I D W N R E 1 13776 542 K F V Q S C I D W N R E V L K 1 13777 574 K T E R K K A T A F F P D L V 1 13778 575 T E R K K A T A F F P D L V N 1 13779 599 I P K P F G P I I N G C C C L 1 13780 625 G L H C T F I D D F T P Y H M 1 13781 630 F I D D F T P Y H M L H G E V 1 13782 633 D F T P Y H M L H G E V H C G 1 13783 634 F T P Y H M L H G E V H C G T 1 13784 638 H M L H G E V H C G T N V C R 1 13785 639 M L H G E V H C G T N V C R K 1 13786 643 E V H C G T N V C R K P F S F 1 13787 184P1E2 v.2: HLA Peptide Scoring Results DRB1 0301 15-mers SYFPEITHI 6 P W I M T P S T L A P L E V Y 21 13788 5 A P W I M T P S T L A P L E V 13 13789 11 P S T L A P L E V Y V C R V R 12 13790 1 V F R V A P W I M T P S T L A 11 13791 9 M T P S T L A P L E V Y V C R 11 13792 10 T P S T L A P L E V Y V C R V 10 13793 14 L A P L E V Y V C R V R N N T 10 13794 3 R V A P W I M T P S T L A P L 8 13795 15 A P L E V Y V C R V R N N T C 8 13796 4 V A P W I M T P S T L A P L E 4 13797 7 W I M T P S T L A P L E V Y V 3 13798 13 T L A P L E V Y V C R V R N N 3 13799 12 S T L A P L E V Y V C R V R N 2 13800 8 I M T P S T L A P L E V Y V C 1 13801 184P1E2 v.3: HLA Peptide Scoring Results DRB1 0301 15-mers SYFPEITHI sq L A V G H V D E F L S F V P V 20 13802 11 S F V P V P D G K G F R M L L 19 13803 10 L S F V P V P D G K G F R M L 18 13804 14 P V P D G K G F R M L L A S P 15 13805 3 V G H V D E F L S F V P V P D 12 13806 6 V D E F L S F V P V P D G K G 12 13807 9 F L S F V P V P D G K G F R M 12 13808 7 D E F L S F V P V P D G K G F 11 13809 12 F V P V P D G K G F R M L L A 11 13810 13 V P V P D G K G F R M L L A S 9 13811 15 V P D G K G F R M L L A S P G 3 13812 4 G H V D E F L S F V P V P D G 2 13813 2 A V G H V D E F L S F V P V P 1 13814 5 H V D E F L S F V P V P D G K 1 13815

TABLE L SEQ. ID Pos 1 2 3 4 5 6 7 8 9 0 1 2 3 4 5 score NO. 184P1E2 v.1: HLA Peptide Scoring Results DRBI 0401 15-mers SYFPEITHI 65 T R R W R F D A T L E I I V V 28 13816 258 D A G F T G L I S F H V T L L 28 13817 353 E L G Y V Q A P H K T L P V V 28 13818 537 L I N Y N K F V Q S C I D W N 28 13819 581 T A F F P D L V N M L V L G K 28 13820 73 T L E I I V V M N S P S N D L 26 13821 219 P E D V C E A Y R H V L G Q D 26 13822 389 F G Y V T R E P R D R S V S G 26 13823 398 D R S V S G L D S F G N L E V 26 13824 401 V S G L D S F G N L E V S P P 26 13825 439 G R R V T Q V V R D F L H A Q 26 13826 443 T Q V V R D F L H A Q K V Q P 26 13827 514 F Q G V V D D E Q V K T I S I 26 13828 563 E C D I I D I P Q L F K T E R 26 13829 637 Y H M L H G E V H C G T N V C 26 13830 37 T E M F E V Y G T P G V D I Y 22 13831 104 P L A Y A V L Y L T C V D I S 22 13832 223 C E A Y R H V L G Q D K V S Y 22 13833 253 G L S F P D A C F T C L I S F 22 13834 288 T V V F R V A P W I M T P S T 22 13835 316 N T C F V D A V A E L A R K A 22 13836 365 P V V F D S P R N G E L Q D F 22 13837 386 G P D F G Y V T R E P R D R S 22 13838 462 F V D W L A V G H V D E F L S 22 13839 494 G A C F K L F Q E K Q K C G H 22 13840 511 A L L F Q G V V D D E Q V K T 22 13841 570 P Q L F K T E R K K A T A F F 22 13842 580 A T A F F P D L V N M L V L G 22 13843 600 P K P F G P I I N G C C C L E 22 13844 627 H C T F I D D F T P Y H M L H 22 13845 6 I V R V S L E H P T S A V C V 20 13846 15 T S A V C V A C V E T L V D I 20 13847 17 A V C V A G V E T L V D I Y C 20 13848 45 T P C V D I Y I S P N M E R G 20 13849 71 D A T L E I I V V M N S P S N 20 13850 74 L F I I V V M N S P S N D L N 20 13851 76 I I V V M N S P S N D L N D S 20 13852 77 I V V M N S P S N D L N D S H 20 13853 102 P L P L A Y A V L Y L T C V D 20 13854 106 A Y A V L Y L T C V D I S L D 20 13855 116 D I S L D C D L N C E G R Q D 20 13856 120 D C D L N C E G R Q D R N F V 20 13857 149 I L L V N C D R D D P S C D V 20 13858 171 V H C L Q D L E D N S V N V B 20 13859 179 D M S V M V L R T Q G P A A L 20 13860 190 P A A L F D D H K L V L H T S 20 13861 197 H K L V L H T S S Y D A K R A 20 13862 248 R F F V E G L S F P D A G F T 20 13863 261 F T G L I S F H V T L L D D S 20 13864 268 H V T L L D D S N E D F S A S 20 13865 287 D T V V F R V A P W I M T P S 20 13866 307 E V Y V C R V R N N T C F V D 20 13867 320 V D A V A E L A R K A G C K L 20 13868 331 G C K L T I C P Q A E N R N D 20 13869 351 E M E L G Y V Q A P H K T L P 20 13870 373 N G E L Q D F P Y K R I L G P 20 13871 382 K R I L G P D F G Y V T R E P 20 13872 422 E Y P L G R I L I C G N L P C 20 13873 442 V T Q V V R D F L H A Q K V Q 20 13874 456 Q P P V E L F V D W L A V G H 20 13875 460 E L F V D W L A V G H V D E F 20 13876 465 W L A V C H V D E F L S F V P 20 13877 468 V C H V D E F L S F V P A P D 20 13878 496 C F K L F Q E K Q K C G H G R 20 13879 515 Q G V V D D E Q V K T I S I N 20 13880 520 D E Q V K T I S I N Q V L S N 20 13881 525 T I S I N Q V L S N K D L I N 20 13882 556 K R S L G L A E C D I I D I P 20 13883 569 I P Q L F K T E R K K A T A F 20 13884 588 V N M L V L G K H L G I P K P 20 13885 618 R S L L S P L C L H C T F I D 20 13886 628 C T F I D D F T P Y H M L H G 20 13887 5 R I V R V S L E H P T S A V C 18 13888 83 P S N D L N D S H V Q I S Y H 18 13889 129 Q D R N F V D K R Q W V W C P 18 13890 152 V N C D R D D P S C D V Q D N 18 13891 173 C L Q D L E D M S V M V L R T 18 13892 189 G P A A L F D D H K L V L H T 18 13893 194 F D D H K L V L H T S S Y D A 18 13894 202 H P 5 S Y D A K R A Q V F H I 18 13895 224 E A Y R H V L C Q D K V S Y E 18 13896 240 P R L H G D E E R F F V E C L 18 13897 278 D F S A S P I F T D T V V F R 18 13898 291 F R V A P W I M T P S T L P P 18 13899 304 P P L E V Y V C R V R N N T C 18 13900 362 K T L P V V F D S P R N C E L 18 13901 405 D S F G N L E V S P P V V A N 18 13902 419 N G K E Y P L G R I L I G G N 18 13903 484 K G F R M L L A S P G A C F K 18 13904 493 P C A C F K L F Q E K Q K C G 18 13905 507 G H G R A L L F Q G V V D D E 18 13906 517 V V D D S Q V K T I S I N Q V 18 13907 522 Q V K T I S I N Q V L S N K D 18 13908 526 I S I N Q V L S N K D L I N Y 18 13909 531 V L S N K D L I N Y N K F V Q 18 13910 543 F V Q S C I D W N R E V L K R 18 13911 567 I D I P Q L F K T E R K K A T 18 13912 306 L E V Y V C R V R N N T C F V 17 13913 27 V D I Y G S V P E G T E M F E 16 13914 67 R W R F D A T L E I I V V M N 16 13915 108 A V L Y L T C V D I S L D C D 16 13916 136 K R Q W V W G P S G Y G G I L 16 13917 138 Q W V W G P S G Y G G I L L V 16 13918 143 P S G Y G G I L L V N C D R D 16 13919 211 A Q V F H I C G P E D V C E A 16 13920 246 E E R F F V E G L S F P D A G 16 13921 247 E R F F V E G L S F P D A G F 16 13922 264 L I S F H V T L L D D S N E D 16 13923 282 S P I F T D T V V F R V A P W 16 13924 293 V A P W I M T P S T L P P L E 16 13925 344 N D R W I Q D E M E L G Y V Q 16 13926 378 D F P Y K R I L G P D F G Y V 16 13927 404 L D S F G N L E V S P P V V A 16 13928 446 V R D F L H A Q K V Q P P V E 16 13929 471 V D E F L S F V P A P D G K C 16 13930 474 F L S F V P A P D G K G F R M 16 13931 483 G K G F R M L L A S P G A C F 16 13932 540 Y N K F V Q S C I D W N R E V 16 13933 547 C I D W N R E V L K R E L G L 16 13934 634 F T P Y H M L H G E V H C G T 16 13935 180 M S V M V L R T Q G P A A L F 15 13936 610 C C C L E E K V R S L L E P L 15 13937 3 L Q R I V R V S L E H P T S A 14 13938 4 Q R I V R V S L E H P T S A V 14 13939 8 R V S L E H P T S A V C V A G 14 13940 20 V A G V E T L V D I Y G S V P 14 13941 23 V E T L V D I Y G S V P E G T 14 13942 24 E T L V D I Y G S V P E G T E 14 13943 26 L V D I Y G S V P E G T E M F 14 13944 36 G T E M F E V Y G T P G V D I 14 13945 39 M F E V Y G T P G V D I Y I S 14 13946 47 G V D I Y I S P N M E R G R E 14 13947 84 S N D L N D S H V Q I S Y H S 14 13948 89 D S H V Q I S Y H S S H E P L 14 13949 91 H V Q I S Y H S S H E P L P L 14 13950 100 H E P L P L A Y A V L Y L T C 14 13951 107 Y A V L Y L T C V D I S L D C 14 13952 109 V L Y L T C V D I S B D C D L 14 13953 112 L T C V D I S L D C D L N C E 14 13954 114 C V D I S L D C D L N C E G R 14 13955 146 Y G G I L L V N C D R D D P S 14 13956 148 G I L L V N C D R D D P S C D 14 13957 160 S C D V Q D N C D Q H V H C L 14 13958 168 D Q H V H C L Q D L E D M S V 14 13959 174 L Q D L E D M S V M V L R T Q 14 13960 177 L E D M S V M V L R T Q G P A 14 13961 181 S V M V L R T Q G P A A L F D 14 13962 182 V M V L R T Q G P A A L F D D 14 13963 196 D H K L V L H T S S Y D A K R 14 13964 198 K L V L H T S S Y D A K R A Q 14 13965 210 R A Q V F H I C G P E D V C E 14 13966 227 R H V L G Q D K V S Y E V P R 14 13967 232 Q D K V S Y E V P R L H G D E 14 13968 236 S Y E V P R L H G D E E R F F 14 13969 239 V P R L H G D E E R F F V E G 14 13970 251 V E G L S F P D A G F T G L I 14 13971 262 T G L I S F H V T L L D D S N 14 13972 266 S F H V T L L D D S N E D F S 14 13973 269 V T L L D D S N E D F S A S P 14 13974 281 A S P I F T D T V V F R V A P 14 13975 290 V F R V A P W I H T P S T L P 14 13976 294 A P W I M T P S T L P P L E V 14 13977 295 P W I N T P S T L P P L E V Y 14 13978 300 P S T L P P L E V Y V C R V R 14 13979 305 P L E V Y V C R V R N N T C F 14 13980 317 T C F V D A V A E L A R K A G 14 13981 333 K L T I C P Q A E N R N D R W 14 13982 345 D R W I Q D E M E L G Y V Q A 14 13983 361 H K T L P V V F D S P K N G E 14 13984 363 T L P V V F D S P R N G E L Q 14 13985 364 L P V V F D S P R N G E L Q D 14 13986 381 Y K R I L G P D F G Y V T R E 14 13987 407 F G N L E V S P P V V A N C K 14 13988 414 P P V V A N G K E Y P L C K I 14 13989 425 L G R I L I G G N L P G S S G 14 13990 426 G K I L I G G N L P G S S G R 14 13991 427 R I L I C G N L P C S S G R R 14 13992 431 G G N L P G S S G R R V T Q V 14 13993 452 A Q K V Q P P V E L F V D W L 14 13994 458 P V E L F V D W L A V C H V D 14 13995 472 D E F L S F V P A P D G K G F 14 13996 485 G F R M L L A S P C A C F K L 14 13997 487 R M L L A S P C A C F K L F Q 14 13998 523 V K T I S I N Q V L S N K D B 14 13999 528 I N Q V L S N K D L I N Y N K 14 14000 534 N K D L I N Y N K F V Q S C I 14 14001 535 K D L I N Y N K F V Q S C I D 14 14002 545 Q S C I D W N R E V L K R E L 14 14003 552 R E V L K R E L G L A E C D I 14 14004 558 E L G L A E C D I I D I P Q L 14 14005 564 C D I I D I P Q L F K T E R K 14 14006 566 I T D I P Q L F K T E R K K A 14 14007 584 F P D L V N M L V L G K H L G 14 14008 585 P D L V N M L V L G K H L G I 14 14009 587 L V N M L V L G K H L G I P K 14 14010 590 M L V L G K H L G I P K P F G 14 14011 596 H L G I P K P F G P I I N C C 14 14012 614 E E K V R S L L E P L G L H C 14 14013 621 L E P L G L H C T F I D D F T 14 14014 641 H G E V H C G T N V C R K P F 14 14015 7 V R V S L E H P T S A V C V A 12 14016 12 E H P T S A V C V A G V E T L 12 14017 14 P T S A V C V A G V E T L V D 12 14018 18 V C V A G V E T L V D I Y G S 12 14019 21 A G V E T L V D I Y G S V P E 12 14020 22 G V E T L V D I Y G S V P E G 12 14021 29 I Y G S V P E G T E M F E V Y 12 14022 34 P E G T E M F E V Y G T P G V 12 14023 42 V Y G T P G V D I Y I S P N M 12 14024 44 G T P G V D I Y I S P N M E R 12 14025 57 E R G R E R A D T R R W R F D 12 14026 58 R G R E R A D T R R W R F D A 12 14027 66 R R W R F D A T L E I I V V M 12 14028 68 W R F D A T L E I I V V M N S 12 14029 69 R F D A T L E I I V V M N S P 12 14030 70 F D A T L E I I V V N N S P S 12 14031 80 N N S P S N D L N D S H V Q I 12 14032 81 N S P S N D L N D S H V Q I S 12 14033 82 S P S N D L N D S H V Q I S Y 12 14034 87 L N D S H V Q I S Y H S S H E 12 14035 88 N D S H V Q I S Y H S S H E P 12 14036 92 V Q I S Y H S S H E P L P L A 12 14037 95 S Y H S S H E P L P L A Y A V 12 14038 97 H S S H E P L P L A Y A V L Y 12 14039 99 S H E P L P L A Y A V L Y L T 12 14040 110 L Y L T C V D I S L D C D L N 12 14041 113 T C V D I S L D C D L N C F C 12 14042 121 C D L N C E G R Q D R N F V D 12 14043 123 L N C E G R Q D R N F V D K R 12 14044 124 N C E G R Q D R N F V D K R Q 12 14045 127 G R Q D R N F V D K R Q W V W 12 14046 145 G Y G G I L L V N C D R D D P 12 14047 156 R D D P S C D V Q D N C D Q H 12 14048 158 D P S C D V Q D N C D Q H V H 12 14049 162 D V Q D N C D Q H V H C L Q D 12 14050 164 Q D N C D Q H V H C L Q D L E 12 14051 170 H V H C L Q D L E D M S V M V 12 14052 172 H C L Q D L E D M S V M V L R 12 14053 176 D L E D M S V M V L R T Q G P 12 14054 178 E D M S V M V L R T Q G P A A 12 14055 187 T Q G P A A L F D D H K L V L 12 14056 188 Q G P A A L F D D H K L V L H 12 14057 193 L F D D H K L V L H T S S Y D 12 14058 195 D D H K L V L H T S S Y D A K 12 14059 201 L H T S S Y D A K R A Q V F H 12 14060 205 S Y D A K R A Q V F H I C G P 12 14061 207 D A K R A Q V F H I C G P E D 12 14062 214 F H I C G P E D V C E A Y R H 12 14063 218 G P E D V C E A Y R H V L G Q 12 14064 233 D K V S Y E V P R L H G D E E 12 14065 243 H G D E E R F F V E G L S F P 12 14066 244 G D E E R F F V E G L S F P D 12 14067 254 L S F P D A G F T G L I S F H 12 14068 255 S F P D A G F T G L I S F H V 12 14069 259 A G F T G L I S F H V T L L D 12 14070 260 G F T G L I S F H V T L L D D 12 14071 265 I S F H V T L L D D S N E D F 12 14072 267 F H V T L L D D S N E D F S A 12 14073 271 L L D D S N E D F S A S P I F 12 14074 272 L D D S N E D F S A S P I F T 12 14075 273 D D S N E D F S A S P T F T D 12 14076 275 S N E D F S A S P I F T D T V 12 14077 279 F S A S P I F T D T V V F R V 12 14078 283 P I F T D T V V F R V A P W I 12 14079 284 I F T D T V V F R V A P W I M 12 14080 297 I M T P S T L P P L E V Y V C 12 14081 302 T L P P L E V Y V C R V R N N 12 14082 309 Y V C R V R N N T C F V D A V 12 14083 313 V R N N T C F V D A V A E L A 12 14084 315 N N T C F V D A V A E L A R K 12 14085 318 C F V D A V A E L A R K A G C 12 14086 319 F V D A V A E L A R K A G C K 12 14087 324 A F L A R K A G C K L T I C P 12 14088 328 R K A G C K L T I C P Q A F N 12 14089 334 L T I C P Q A E N R N D R W I 12 14090 335 T I C P Q A E N R N D R W I Q 12 14091 338 P Q A E N R N D R W I Q D E M 12 14092 341 E N R N D R W I Q D E M E L G 12 14093 347 W I Q D E M E L G Y V Q A P H 12 14094 348 I Q D E N E L G Y V Q A P H K 12 14095 355 G Y V Q A P H K T L P V V F D 12 14096 369 D S P R N G E L Q D F P Y K R 12 14097 392 V T R E P R D R S V S G L D S 12 14098 395 E P R D R S V S G L D S F G N 12 14099 399 R S V S G L D S F G N L E V S 12 14100 406 S F G N L E V S P P V V A N G 12 14101 410 L S V S P P V V A N G K S Y P 12 14102 411 E V S P P V V A N G K E Y P L 12 14103 423 Y P L G R I L I G C N L P G S 12 14104 432 G N L P G S S G R R V T Q V V 12 14105 433 N L P G S S G R R V T Q V V R 12 14106 436 G S S G R R V T Q V V R D F L 12 14107 444 Q V V R D F L H A Q K V Q P P 12 14108 445 V V R D F L H A Q K V Q P P V 12 14109 455 V Q P P V E L F V D W L A V G 12 14110 457 P P V E L F V D W L A V G H V 12 14111 467 A V G H V D E F L S F V P A P 12 14112 469 G H V D E F L S F V P A P D G 12 14113 479 P A P D G K G F R M L L A S P 12 14114 480 A P D G K G F R M L L A S P G 12 14115 500 F Q E K Q K C G H G R A L L F 12 14116 502 E K Q K C G H G R A L L F Q G 12 14117 506 C G H G R A L L F Q G V V D D 12 14118 512 L L F Q G V V D D E Q V K T I 12 14119 513 L F Q G V V D D E Q V K T I S 12 14120 519 D D E Q V K T I S I N Q V L S 12 14121 521 E Q V K T I S I N Q V L S N K 12 14122 530 Q V L S N K D L I N Y N K F V 12 14123 533 S N K D L I N Y N K F V Q S C 12 14124 538 I N Y N K F V Q S C I D W N R 12 14125 544 V Q S C I D W N R E V L K R E 12 14126 548 I D W N R E V L K R E L G L A 12 14127 549 D W N R E V L K R E L G L A S 12 14128 555 L K R E L G L A E C D I I D I 12 14129 560 G L A E C D I I D I P Q L F K 12 14130 561 L A E C D I I D I P Q L F K T 12 14131 576 E R K K A T A F F P D L V N M 12 14132 577 R K K A T A F F P D L V N M L 12 14133 578 K K A T A F F P D L V N M L V 12 14134 582 A F F P D L V N M L V L G K H 12 14135 586 D L V N M L V L G K H L C I P 12 14136 597 L G I P K P F G P I I N G C C 12 14137 608 N G C C C L E E K V R S L L E 12 14138 609 G C C C L E E K V R S L L E P 12 14139 611 C C L E E K V R S L L E P L G 12 14140 615 E K V R S L L E P L G L H C T 12 14141 620 L L E P L G L H C T F I D D F 12 14142 624 L G L H C T F I D D F T P Y H 12 14143 633 D F T P Y H M L H G E V H C G 12 14144 638 H M L H G E V H C G T N V C R 12 14145 644 V H C G T N V C R K P F S F K 12 14146 130 D R N F V D K R Q W V W G P S 11 14147 40 F E V Y G T P G V D I Y I S P 10 14148 48 V D I Y I S P N M E R G R E R 10 14149 93 Q I S Y H S S H E P L P L A Y 10 14150 191 A A L F D D H K L V L H T S S 10 14151 234 K V S Y S V P R L H G D E E R 10 14152 276 N S D F S A S P I F T D T V V 10 14153 420 G K E Y P L G R I L I G G N L 10 14154 459 V E L F V D W L A V G H V D E 10 14155 631 I D D F T P Y H M L H G E V H 10 14156 286 T D T V V F R V A P W I M T P 9 14157 323 V A E L A R K A G C K L T I C 9 14158 551 N R E V L K R E L G L A E C D 9 14159 647 G T N V C R K P F S F K W W N 9 14160 30 Y G S V P E G T E M F E V Y G 8 14161 49 D I Y I S P N M E R G R E R A 8 14162 53 S P N M E R G R E R A D T R R 8 14163 75 E I I V V M N S P S N D L N D 8 14164 137 R Q W V W G P S G Y G G I L L 8 14165 147 G G I L L V N C D R D D P S C 8 14166 213 V F H I C G P E D V C E A Y R 8 14167 226 Y R H V L G Q D K V S Y E V P 8 14168 303 L P P L E V Y V C R V R N N T 8 14169 310 V C R V R N N T C F V D A V A 8 14170 349 Q D E M E L G Y V Q A P H K T 8 14171 354 L G Y V Q A P H K T L P V V F 8 14172 409 N L E V S P P V V A N G K E Y 8 14173 413 S P P V V A N G K E Y P L G R 8 14174 447 R D F L H A Q K V Q P P V E L 8 14175 463 V D W L A V G H V D E F L S F 8 14176 475 L S F V P A P D G K G F R M L 8 14177 486 F R M L L A S P G A C F K L F 8 14178 509 G R A L L F Q G V V D D E Q V 8 14179 510 R A L L F Q G V V D D E Q V K 8 14180 541 N K F V Q S C I D W N R E V L 8 14181 594 G K H L G I P K P F G P I I N 8 14182 603 F C P I I N G C C C L S E K V 8 14183 604 G P I I N G C C C L E E K V R 8 14184 617 V R S L L E P L G L H C T F I 8 14185 623 P L G L H C T F I D D F T P Y 8 14186 636 P Y H M L H G S V H C G T N V 8 14187 52 I S P N M E R G R S R A D T R 7 14188 54 P N M E R G R E R A D T R R W 7 14189 61 E R A D T R R W R F D A T L E 7 14190 228 H V L G Q D K V S Y S V P R L 7 14191 391 Y V T R E P R D R S V S G L D 7 14192 435 P G S S G R R V T Q V V R D F 7 14193 448 D F L H A Q K V Q p p v S L F 7 14194 1 M S L Q R I V R V S L E H P T 6 14195 9 V S L E H P T S A V C V A G V 6 14196 10 S L E H P T S A V C V A G V E 6 14197 11 L E H P T S A V C V A G V E T 6 14198 16 S A V C V A G V E T L V D I Y 6 14199 28 D I Y G S V P 5 G T E M F E V 6 14200 31 G S V P E G T E M F E V Y G T 6 14201 32 S V P E G T E M F E V Y G T P 6 14202 35 E G T E M F E V Y G T P G V D 6 14203 41 E V Y G T P G V D I Y I S P N 6 14204 43 Y G T P G V D I Y I S P N M E 6 14205 46 P G V D I Y I S P N M E R G R 6 14206 50 I Y I S P N M E R G R E R A D 6 14207 51 Y I S P N M E R G R E R A D T 6 14208 55 N M E R G R E R A D T R R W R 6 14209 59 G R E R A D T R R W R F D A T 6 14210 62 R A D T R R W R F D A T L E I 6 14211 64 D T R R W R F D A T L B I I V 6 14212 72 A T L E I I V V M N S P S N D 6 14213 79 V M N S P S N D L N D S H V Q 6 14214 85 N D L N D S H V Q I S Y H S S 6 14215 86 D L N D S H V Q I S Y H S S H 6 14216 90 S H V Q I S Y H S S H E P L P 6 14217 94 I S Y H S S H E P L P L A Y A 6 14218 98 S S H E P L P L A Y A V L Y L 6 14219 101 E P L P L A Y A V L Y L T C V 6 14220 103 L P L A Y A V L Y L T C V D I 6 14221 105 L A Y A V L Y L T C V D I S L 6 14222 111 Y L T C V D I S L D C D L N C 6 14223 117 I S L D C D L N C E G R Q D R 6 14224 118 S L D C D L N C E G R Q D R N 6 14225 128 R Q D R N F V D K R Q W V W G 6 14226 133 F V D K R Q W V W G P S G Y G 6 14227 134 V D K R Q W V W G P S G Y G G 6 14228 139 W V W G P S G Y G G I L L V N 6 14229 140 V W G P S G Y G G I L L V N C 6 14230 141 W G P S G Y G G I L L V N C D 6 14231 142 G P S G Y G G I L L V N C D R 6 14232 144 S G Y G G I L L V N C D R D D 6 14233 151 L V N C D R D D P S C D V Q D 6 14234 153 N C D R D D P S C D V Q D N C 6 14235 155 D R D D P S C D V Q D N C D Q 6 14236 157 D D P S C D V Q D N C D Q H V 6 14237 159 P S C D V Q D N C D Q H V H C 6 14238 161 C D V Q D N C D Q H V H C L Q 6 14239 163 V Q D N C D Q H V H C L Q D L 6 14240 165 D N C D Q H V H C L Q D L E D 6 14241 166 N C D Q H V H C L Q D L E D M 6 14242 167 C D Q H V H C L Q D L E D M S 6 14243 169 Q H V H C L Q D L E D M S V M 6 14244 185 L R T Q G P A A L F D D H K L 6 14245 186 R T Q G P A A L F D D H K L V 6 14246 200 V L H T S S Y D A K R A Q V F 6 14247 208 A K R A Q V F H I C G P E D V 6 14248 215 H I C G P E D V C E A Y R H V 6 14249 216 I C G P E D V C E A Y R H V L 6 14250 220 E D V C E A Y R H V L G Q D K 6 14251 225 A Y R H V L G Q D K V S Y E V 6 14252 229 V L G Q D K V S Y E V P R L H 6 14253 231 G Q D K V S Y E V P R L H G D 6 14254 241 R L H G D E E R F F V E G L S 6 14255 245 D E E R F F V E G L S F P D A 6 14256 250 F V E G L S F P D A G F T G L 6 14257 252 E G L S F P D A G F T G L I S 6 14258 263 G L I S F H V T L L D D S N E 6 14259 270 T L L D D S N E D F S A S P I 6 14260 274 D S N E D F S A S P I F T D T 6 14261 277 E D F S A S P I F T D T V V F 6 14262 280 S A S P I F T D T V V F R V A 6 14263 285 F T D T V V F R V A P W I M T 6 14264 292 R V A P W I M T P S T L P P L 6 14265 299 T P S T L P P L E V Y V C R V 6 14266 301 S T L P P L E V Y V C R V R N 6 14267 311 C R V R N N T C F V D A V A E 6 14268 312 R V R N N T C F V D A V A E L 6 14269 314 R N N T C F V D A V A E L A R 6 14270 321 D A V A E L A R K A G C K L T 6 14271 325 E L A R K A G C K L T I C P Q 6 14272 329 K A G C K L T I C P Q A E N R 6 14273 330 A G C K L T I C P Q A E N R N 6 14274 336 I C P Q A E N R N D R W I Q D 6 14275 339 Q A E N R N D R W I Q D E M E 6 14276 342 N R N D R W I Q D E M E L G Y 6 14277 343 R N D R W I Q D E M E L G Y V 6 14278 346 R W I Q D E M E L G Y V Q A P 6 14279 350 D E M E L G Y V Q A P H K T L 6 14280 352 M B L G Y V Q A P H K T L P V 6 14281 358 Q A P H K T L P V V F D S P R 6 14282 359 A P H K T L P V V F D S P R N 6 14283 360 P H K T L P V V F D S P R N C 6 14284 370 S P R N C E L Q D F P Y K R I 6 14285 371 P R N G E L Q D F P Y K R I L 6 14286 372 R N G E L Q D F P Y K R I L G 6 14287 374 G F L Q D F P Y K R I L G P D 6 14288 375 E L Q D F P Y K R I L G P D F 6 14289 379 F P Y K R I L G P D F G Y V T 6 14290 383 R I L G P D F G Y V T R E P R 6 14291 385 L G P D F G Y V T R E P R D R 6 14292 390 G Y V T R E P R D R S V S G L 6 14293 394 R E P R D R S V S G L D S F G 6 14294 402 S G L D S F G N L E V S P P V 6 14295 408 G N L E V S P P V V A N G K E 6 14296 412 V S P P V V A N G K E Y P L G 6 14297 416 V V A N G K E Y P L G R I L I 6 14298 417 V A N G K E Y P L G R I L I G 6 14299 418 A N G K E Y P L G R I L I G G 6 14300 424 P L G R I L I G G N L P G S S 6 14301 428 I L I G G N L P G S S G R R V 6 14302 429 L I G G N L P G S S G R R V T 6 14303 430 I G G N L P G S S G R R V T Q 6 14304 440 R R V T Q V V R D F L H A Q K 6 14305 449 F L H A Q K V Q P P V E L F V 6 14306 450 L H A Q K V Q P P V E L F V D 6 14307 453 Q K V Q P P V E L F V D W L A 6 14308 454 K V Q P P V E L F V D W L A V 6 14309 461 L F V D W L A V G H V D E F L 6 14310 464 D W L A V G H V D E F L S F V 6 14311 466 L A V G H V D E F L S F V P A 6 14312 473 E F L S F V P A P D G K G F R 6 14313 476 S F V P A P D G K G F R M L L 6 14314 477 F V P A P D G K G F R M L L A 6 14315 488 M L L A S P G A C F K L F Q E 6 14316 489 L L A S P G A C F K L F Q E K 6 14317 490 L A S P G A C F K L F Q E K Q 6 14318 491 A S P G A C F K L F Q E K Q K 6 14319 501 Q E K Q K C G H G R A L L F Q 6 14320 505 K C G H G R A L L F Q G V V D 6 14321 508 H G R A L L F Q G V V D D E Q 6 14322 516 G V V D D E Q V K T I S I N Q 6 14323 524 K T I S I N Q V L S N K D L I 6 14324 527 S I N Q V L S N K D L I N Y N 6 14325 532 L S N K D L I N Y N K F V Q S 6 14326 542 K F V Q S C I D W N R E V L K 6 14327 553 E V L K R E L G L A E C D I I 6 14328 557 R E L G L A E C D I I D I P Q 6 14329 559 L C L A E C D I I D I P Q L F 6 14330 562 A E C D I I D I P Q L F K T E 6 14331 574 K T E R K K A T A F F P D L V 6 14332 579 K A T A F F P D L V N M L V L 6 14333 591 L V L G K H L G I P K P F G P 6 14334 593 L G K H L G I P K P F G P I I 6 14335 601 K P F G P I I N G C C C L E E 6 14336 602 P F G P I I N G C C C L E E K 6 14337 605 P I I N G C C C L E E K V R S 6 14338 606 I I N G C C C L E E K V R S L 6 14339 607 I N G C C C L E E K V R S L L 6 14340 613 L E E K V R S L L E P L G L H 6 14341 616 K V R S L L E P L G L H C T F 6 14342 619 S L L E P L G L H C T F I D D 6 14343 625 G L H C T F I D D F T P Y H M 6 14344 626 L H C T F I D D F T P Y H M L 6 14345 629 T F I D D F T P Y H M L H G E 6 14346 630 F I D D F T P Y H M L H G E V 6 14347 639 M L H G E V H C G T N V C R K 6 14348 640 L H G E V H C G T N V C R K P 6 14349 642 G E V H C G T N V C R K P F S 6 14350 645 H C G T N V C R K P F S F K W 6 14351 648 T N V C R K P F S F K W W N M 6 14352 649 N V C R K P F S F K W W N M V 6 14353 650 V C R K P F S F K W W N M V P 6 14354 203 T S S Y D A K R A Q V F H I C 5 14355 376 L Q D F P Y K R I L C P D F G 5 14356 388 D F G Y V T R E P R D R S V S 5 14357 497 F K L F Q E K Q K C G H G R A 5 14358 131 R N F V D K R Q W V W G P S G 3 14359 529 N Q V L S N K D L I N Y N K F 3 14360 589 N M L V L G K H L G I P K P F 3 14361 2 S L Q R I V R V S L E H P T S 1 14362 63 A D T R R W R F D A T L E I I 1 14363 125 C E G R Q D R N F V D K R Q W 1 14364 192 A L F D D H K L V L H T S S Y 1 14365 204 S S Y D A K R A Q V F H I C G 1 14366 221 D V C E A Y R H V L G Q D K V 1 14367 235 V S Y E V P R L H G D E E R F 1 14368 308 V Y V C R V R N N T C F V D A 1 14369 322 A V A E L A R K A G C K L T I 1 14370 327 A R K A C C K L T I C P Q A E 1 14371 337 C P Q A E N R N D R W I Q D E 1 14372 356 Y V Q A P H K T L P V V F D S 1 14373 366 V V F D S P R N G E L Q D F P 1 14374 393 T R E P R D R S V S G L D S F 1 14375 434 L P G S S G R R V T Q V V R D 1 14376 441 R V T Q V V R D F L H A Q K V 1 14377 478 V P A P D G K G F R M L L A S 1 14378 481 P D C K G F R M L L A S P G A 1 14379 492 S P G A C F K L F Q E K Q K C 1 14380 504 Q K C G H G R A L L F Q G V V 1 14381 518 V D D E Q V K T I S I N Q V L 1 14382 550 W N R E V L K R E L G L A E C 1 14383 568 D I P Q L F K T E R K K A T A 1 14384 571 Q L F K T E R K K A T A F F P 1 14385 573 F K T E R K K A T A F F P D L 1 14386 595 K H L G I P K P F G P I I N G 1 14387 56 M E R G R E R A D T R R W R F −5 14388 60 R E R A D T R R W R F D A T L −5 14389 122 D L N C E G R Q D R N F V D K −5 14390 150 L L V N C D R D D P S C D V Q −5 14391 242 L H G D E E R F F V E G L S F −5 14392 340 A E N R N D R W I Q D E M E L −5 14393 377 Q D F P Y K R T L G P D F G Y −5 14394 415 P V V A N G K E Y P L G R I L −5 14395 421 K E Y P L G R I L I G G N L P −5 14396 499 L F Q E K Q K C G H G R A L L −5 14397 536 D L I N Y N K F V Q S C I D W −5 14398 546 S C I D W N R E V L K R E L G −5 14399 572 L F K T E R K K A T A F F P D −5 14400 612 C L E E K V R S L L E P L G L −5 14401 646 C G T N V C R K P F S F K W W −5 14402 184P1E2 v.2: HLA Peptide Scoring Results DRB1 0401 15-mers SYFPE1THI 4 V A P W I M T P S T L A P L E 22 14403 2 F R V A P W I M T P S T L A P 18 14404 15 A P L E V Y V C R V R N N T C 18 14405 1 V F R V A P W I M T P S T L A 14 14406 5 A P W I M T P S T L A P L E V 14 14407 6 P W I M T P S T L A P L E V Y 14 14408 11 P S T L A P L E V Y V C R V R 14 14409 8 I M T P S T L A P L E V Y V C 12 14410 13 T L A P L E V Y V C R V R N N 12 14411 14 L A P L E V Y V C R V R N N T 8 14412 3 R V A P W I M T P S T L A P L 6 14413 9 M T P S T L A P L E V Y V C R 6 14414 10 T P S T L A P L E V Y V C R V 6 14415 12 S T L A P L E V Y V C R V R N 6 14416 184P1E2 v.3: HLA Peptide Scoring Results DRB1 0401 15-mers SYFPE1THI 3 V G H V D E F L S F V P V P D 20 14417 6 V D E F L S F V P V P D G K G 16 14418 9 F L S F V P V P D G K G F R M 16 14419 7 D E F L S F V P V P D G K G F 14 14420 12 F V P V P D G K G F R N L L A 14 14421 2 A V G H V D E F L S F V P V P 12 14422 4 G H V D E F L S F V P V P D G 12 14423 14 P V P D G K G F R M L L A S P 12 14424 15 V P D G K G F R M L L A S P G 12 14425 10 L S F V P V P D G K G F R M L 8 14426 1 L A V G H V D E F L S F V P V 6 14427 8 E F L S F V P V P D G K G F R 6 14428 11 S F V P V P D G K G F R M L L 6 14429 13 V P V P D G K G F R M L L A S 1 14430

TABLE LI SEQ. ID Pos 1 2 3 4 5 6 7 8 9 0 1 2 3 4 5 score NO. 184P1E 2 v.1: HLA Peptide Scoring Results DRB1 0401 15-mers SYFPEITHI 587 L V N M L V L G K H L G I P K 28 14431 320 V D A V A E L A R K A G C K L 26 14432 386 G P D F G Y V T R E P R D R S 24 14433 389 F G Y V T R E P R D R S V S G 24 14434 439 G R R V T Q V V R D F L H A Q 24 14435 446 V R D F L H A Q K V Q P P V E 24 14436 462 F V D W L A V G H V D E F L S 24 14437 284 I F T D T V V F R V A P W I M 23 14438 404 L D S F G N L E V S P P V V A 22 14439 483 G K G F R M L L A S P G A C F 22 14440 549 D W N R E V L K R E L G L A E 22 14441 569 I P Q L F K T E R K K A T A F 22 14442 354 L G Y V Q A P H K T L P V V F 21 14443 5 R I V R V S L E H P T S A V C 20 14444 20 V A G V E T L V D I Y G S V P 20 14445 71 D A T L E I I V V N N S P S N 20 14446 148 G I L L V N C D R D D P S C D 20 14447 178 E D M S V M V L R T Q G P A A 20 14448 194 F D D H K L V L H T S S Y D A 20 14449 207 D A K R A Q V F H I C G P E D 20 14450 233 D K V S Y E V P R L H G D E E 20 14451 306 L E V Y V C R V R N N T C F V 20 14452 413 S P P V V A N G K E Y P L G R 20 14453 566 I I D I P Q L F K T E R K K A 20 14454 593 L G K H L G I P K P F G P I I 20 14455 23 V S T L V D I Y G S V P E C T 19 14456 36 G T E M F E V Y G T P G V D I 19 14457 73 T L S I I V V M N S P S N D L 19 14458 179 D M S V M V L R T Q G P A A L 19 14459 316 N T C F V D A V A E L A R K A 19 14460 465 W L A V G H V D E F L S F V P 19 14461 581 T A F F P D L V N M L V L G K 19 14462 614 E E K V R S L L E P L G L H C 19 14463 3 L Q R I V R V S L E H P T S A 18 14464 48 V D I Y I S P N M S R C R S R 18 14465 246 E S R F F V E G L S F P D A G 18 14466 248 R F F V S G L S F P D A G F T 18 14467 258 D A G F T G L I S F H V T L L 18 14468 353 E L G Y V Q A P H K T L P V V 18 14469 472 D S F L S F V P A P D G K G F 18 14470 497 F K L F Q E K Q K C G H G R A 18 14471 511 A L L F Q G V V D D E Q V K T 18 14472 570 P Q L F K T F R K K A T A F F 18 14473 631 I D D F T P Y H M L H G E V H 18 14474 93 Q I S Y H S S H E P L P L A Y 17 14475 104 P L A Y A V L Y L T C V D I S 17 14476 264 L I S F H V T L L D D S N E D 17 14477 293 V A P W I M T P S T L P P L E 17 14478 344 N D R W I Q D E M E L G Y V Q 17 14479 420 G K E Y P L G R I L I G G N L 17 14480 474 F L S F V P A P D G K G F R M 17 14481 516 G V V D D E Q V K T I S I N Q 17 14482 610 C C C L E E K V R S L L E P L 17 14483 634 F T P Y H M L H G E V H C G T 17 14484 27 V D I Y G S V P E G T E M F E 16 14485 50 I Y I S P N M E R G R E R A D 16 14486 52 I S P N M E R G R E R A D T R 16 14487 61 E R A D T R R W R F D A T L E 16 14488 136 K R Q W V W G P S G Y G G I L 16 14489 143 P S G Y G G I L L V N C D R D 16 14490 177 L E D M S V M V L R T Q G P A 16 14491 190 P A A L F D D H K L V L H T S 16 14492 223 C E A Y R H V L G Q D K V S Y 16 14493 282 S P I F T D T V V F R V A P W 16 14494 283 P I F T D T V V F R V A P W I 16 14495 304 P P L E V Y V C R V R N N T C 16 14496 375 E L Q D F P Y K R I L G P D F 16 14497 376 L Q D F P Y K R I L G P D F G 16 14498 378 D F P Y K R I L G P D F G Y V 16 14499 500 F Q E K Q K C G H G R A L L F 16 14500 571 Q L F K T E R K K A T A F F P 16 14501 600 P K P F C P I I N C C C C L E 16 14502 608 N G C C C L E E K V R S L L E 16 14503 637 Y H M L H G E V H C G T N V C 16 14504 644 V H C G T N V C R K P F S F K 16 14505 109 V L Y L T C V D I S L D C D L 15 14506 128 R Q D R N F V D K R Q W V W C 15 14507 219 P E D V C E A Y R H V L G Q D 15 14508 220 E D V C E A Y R H V L C Q D K 15 14509 364 L P V V F D S P R N G E L Q D 15 14510 391 Y V T R E P R D R S V S G L D 15 14511 419 N G K E Y P L G R I L I G G N 15 14512 456 Q P P V E L F V D W L A V G H 15 14513 458 P V E L F V D W L A V G H V D 15 14514 534 N K D L I N Y N K F V Q S C I 15 14515 548 I D W N R E V L K R E L G L A 15 14516 585 P D L V N M L V L G K H L G I 15 14517 645 H C G T N V C R K P F S F K W 15 14518 21 A G V E T L V D I Y G S V P E 14 14519 33 V P E G T E M F E V Y C T P G 14 14520 72 A T L E I I V V M N S P S N D 14 14521 89 D S H V Q I S Y H S S H E P L 14 14522 120 D C D L N C E C R Q D R N F V 14 14523 146 Y G G I L L V N C D R D D P S 14 14524 193 L F D D H K L V L H T S S Y D 14 14525 226 Y R H V L G Q D K V S Y E V P 14 14526 266 S F H V T L L D D S N E D F S 14 14527 287 D T V V F R V A P W I M T P S 14 14528 360 P H K T L P V V F D S P R N G 14 14529 407 F G N L E V S P P V V A N G K 14 14530 409 N L E V S P P V V A N G K E Y 14 14531 443 T Q V V R D F L H A Q K V Q P 14 14532 547 C I D W N R E V L K R E L G L 14 14533 588 V N M L V L G K H L G I P K P 14 14534 625 G L H C T F I D D F T P Y H M 14 14535 633 D F T P Y H M L H G E V H C G 14 14536 17 A V C V A G V E T L V D T Y G 13 14537 42 V Y G T P G V D I Y I S P N M 13 14538 74 L E I I V V M N S P S N D L N 13 14539 84 S N D L N D S H V Q I S Y H S 13 14540 107 Y A V L Y L T C V D I S L D C 13 14541 174 L Q D L E D M S V M V L R T Q 13 14542 210 R A Q V F H I C G P E D V C E 13 14543 229 V L G Q D K V S Y E V P R L H 13 14544 300 P S T L P P L E V Y V C R V R 13 14545 361 H K T L P V V F D S P R N G E 13 14546 363 T L P V V F D S P R N G E L Q 13 14547 424 P L G R I L I G G N L P G S S 13 14548 468 V G H V D E F L S F V P A P D 13 14549 482 D C K G F R M L L A S P C A C 13 14550 496 C F K L F Q E K Q K C G H G R 13 14551 522 Q V K T I S I N Q V L S N K D 13 14552 525 T I S I N Q V L S N K D L I N 13 14553 551 N R E V L K R E L G L A E C D 13 14554 589 N M L V L G K H L G I P K P F 13 14555 591 L V L G K H L G I P K P F G P 13 14556 6 I V R V S L E H P T S A V C V 12 14557 88 N D S H V Q I S Y H S S H F P 12 14558 91 H V Q I S Y H S S H E P L P L 12 14559 97 H S S H E P L P L A Y A V L Y 12 14560 106 A Y A V L Y L T C V D I S L D 12 14561 108 A V L Y L T C V D I S L D C D 12 14562 116 D I S L D C D L N C E G R Q D 12 14563 131 R N F V D K R Q W V W G P S G 12 14564 134 V D K R Q W V W G P S G Y G G 12 14565 137 R Q W V W G P S G Y G G I L L 12 14566 149 I L L V N C D R D D P S C D V 12 14567 168 D Q H V H C L Q D L E D N S V 12 14568 171 V H C L Q D L E D M S V M V L 12 14569 180 M S V M V L R T Q G P A A L F 12 14570 181 S V M V L R T Q G P A A L F D 12 14571 197 H K L V L H T S S Y D A K R A 12 14572 236 S Y E V P R L H G D E E R F F 12 14573 269 V T L L D D S N E D F S A S P 12 14574 290 V F R V A P W I M T P S T L P 12 14575 294 A P W I M T P S T L P P L S V 12 14576 307 E V Y V C R V R N N T C F V D 12 14577 317 T C F V D A V A E L A R K A G 12 14578 348 I Q D E M E L G Y V Q A P H K 12 14579 349 Q D E M E L G Y V Q A P H K T 12 14580 351 E N E L G Y V Q A P H K T L P 12 14581 379 F P Y K R I L G P D F G Y V T 12 14582 395 E P R D R S V S G L D S F G N 12 14583 398 D R S V S G L D S F G N L E V 12 14584 422 E Y P L G R I L I G G N L P G 12 14585 425 L G R I L I G G N L P G S S G 12 14586 426 G R I L I G G N L P G S S G R 12 14587 427 R I L I G G N L P G S S G R R 12 14588 428 I L I G G N L P G S S G R R V 12 14589 447 R D F L H A Q K V Q P P V E L 12 14590 460 E L F V D W L A V G H V D E F 12 14591 469 G H V D E F L S F V P A P D G 12 14592 471 V D E F L S F V P A P D G K G 12 14593 484 K G F R M L L A S P G A C F K 12 14594 520 D E Q V K T I S I N Q V L S N 12 14595 535 K D L I N Y N K F V Q S C I D 12 14596 537 L I N Y N K F V Q S C I D W N 12 14597 563 E C D I I D I P Q L F K T E R 12 14598 584 F P D L V N M L V L G K H L G 12 14599 594 G K H L G I P K P F G P I I N 12 14600 618 R S L L E P L G L H C T F I D 12 14601 636 P Y H M L H G E V H C G T N V 12 14602 37 T E M F E V Y G T P G V D I Y 11 14603 40 F E V Y G T P G V D I Y I S P 11 14604 67 R W R F D A T L E I I V V M N 11 14605 130 D R N F V D K R Q W V W G P S 11 14606 164 Q D N C D Q H V H C L Q D L E 11 14607 191 A A L F D D H K L V L H T S S 11 14608 203 T S S Y D A K R A Q V F H I C 11 14609 234 K V S Y E V P R L H G D E E R 11 14610 288 T V V F R V A P W I M T P S T 11 14611 303 L P P L E V Y V C R V R N N T 11 14612 313 V R N N T C F V D A V A E L A 11 14613 388 D F G Y V T R E P R D R S V S 11 14614 580 A T A F F P D L V N M L V L G 11 14615 11 L E H P T S A V C V A G V E T 10 14616 59 G R E R A D T R R W R F D A T 10 14617 65 T R R W R F D A T L S I I V V 10 14618 129 Q D R N F V D K R Q W V W G P 10 14619 138 Q W V W G P S G Y C G I L L V 10 14620 211 A Q V F H I C G P E D V C E A 10 14621 232 Q D K V S Y E V P R L H G D E 10 14622 247 E R F F V E G L S F P D A G F 10 14623 253 G L S F P D A G F T G L I S F 10 14624 276 N E D F S A S P I F T D T V V 10 14625 359 A P H K T L P V V F D S P R N 10 14626 365 P V V F D S P R N G E L Q D F 10 14627 374 G E L Q D F P Y K R I L G P D 10 14628 385 L G P D F G Y V T R E P R D R 10 14629 432 G N L P G S S G R S V T Q V V 10 14630 459 V E L F V D W L A V C H V D E 10 14631 494 G A C F K L F Q E K Q K C G H 10 14632 540 Y N K F V Q S C I D W N R E V 10 14633 627 H C T F I D D F T P Y H M L H 10 14634 630 F I D D F T P Y H M L H G E V 10 14635 643 E V H C G T N V C R K P F S F 10 14636 58 R G R E R A D T R R W R F D A 9 14637 102 P L P L A Y A V L Y L T C V D 9 14638 189 G P A A L F D D H K L V L H T 9 14639 201 L H T S S Y D A K R A Q V F H 9 14640 244 G D E E R F F V E G L S F P D 9 14641 262 T G L I S F H V T L L D D S N 9 14642 338 P Q A E N R N D R W I Q D E M 9 14643 431 G G N L P G S S G R R V T Q V 9 14644 479 P A P D G K G F R M L L A S P 9 14645 495 A C F K L F Q E K Q K C G H G 9 14646 502 E K Q K C G H G R A L L F Q G 9 14647 510 R A L L F Q G V V D D E Q V K 9 14648 527 S I N Q V L S N K D L T N Y N 9 14649 544 V Q S C I D W N R E V L K R E 9 14650 26 L V D I Y G S V P E G T E M F 8 14651 35 E G T E M F E V Y G T P G V D 8 14652 54 P N M E R G R E R A D T R R W 8 14653 83 P S N D L N D S H V Q I S Y H 8 14654 92 V Q I S Y H S S H E P L P L A 8 14655 123 L N C E G R Q D R N F V D K R 8 14656 133 F V D K R Q W V W G P S G Y G 8 14657 145 G Y G G I L L V N C D R D D P 8 14658 147 G G I L L V N C D R D D P S C 8 14659 162 D V Q D N C D Q H V H C L Q D 8 14660 176 D L E D M S V M V L R T Q G P 8 14661 200 V L H T S S Y D A K R A Q V F 8 14662 202 H T S S Y D A K R A Q V F H I 8 14663 224 E A Y R H V L G Q D K V S Y E 8 14664 235 V S Y E V P R L H G D E E R F 8 14665 240 P R L H G D E E R F F V E G L 8 14666 260 G F T G L I S F H V T L L D D 8 14667 286 T D T V V F R V A P W I M T P 8 14668 295 P W I M T P S T L P P L E V Y 8 14669 302 T L P P L E V Y V C R V R N N 8 14670 305 P L E V Y V C R V R N N T C F 8 14671 319 F V D A V A E L A R K A G C K 8 14672 321 D A V A E L A R K A G C K L T 8 14673 325 E L A R K A G C K L T I C P Q 8 14674 331 G C K L T I C P Q A E N R N D 8 14675 333 K L T I C P Q A E N R N D R W 8 14676 335 T I C P Q A E N R N D R W I Q 8 14677 373 N G E L Q D F P Y K R I L G P 8 14678 410 L E V S P P v V A N C K E Y P 8 14679 411 E V S P P V V A N G K E Y P L 8 14680 433 N L P G S S G R R V T Q V V R 8 14681 440 R R V T Q V V R D F L H A Q K 8 14682 452 A Q K V Q P P V E L F V D W L 8 14683 476 S F V P A P D G K G F R M L L 8 14684 490 L A S P G A C F K L F Q E K Q 8 14685 493 P G A C F K L F Q E K Q K C G 8 14686 542 K F V Q S C I D W N R E V L K 8 14687 583 F F P D L V N M L V L G K H L 8 14688 619 S L L E P L C L H C T F I D D 8 14689 650 V C R K P F S F K W W N M V P 8 14690 1 M S L Q R I V R V S L E H P T 7 14691 4 Q R I V R V S L E H P T S A V 7 14692 8 R V S L E H P T S A V C V A G 7 14693 10 S L E H P T S A V C V A G V E 7 14694 15 T S A V C V A G V E T L V D I 7 14695 43 Y G T P G V D I Y I S P N M E 7 14696 49 D I Y I S P N M E R G R E R A 7 14697 53 S P N M E R G R E R A D T R R 7 14698 68 W R F D A T L E I I V V M N S 7 14699 77 I V V M N S P S N D L N D S H 7 14700 87 L N D S H V Q I S Y H S S H E 7 14701 95 S Y H S S H E P L P L A Y A V 7 14702 99 S H E P L P L A Y A V L Y L T 7 14703 100 H E P L P L A Y A V L Y L T C 7 14704 113 T C V D I S L D C D L N C E G 7 14705 195 D D H K L V L H T S S Y D A K 7 14706 208 A K R A Q V F H I C G P E D V 7 14707 225 A Y R H V L G Q D K V S Y E V 7 14708 239 V P R L H G D E E R F F V E G 7 14709 245 D E E R F F V E G L S F P D A 7 14710 252 E G L S F P D A G F T C L I S 7 14711 255 S F P D A G F T G L I S F H V 7 14712 259 A C F T C L I S F H V T L L D 7 14713 261 F T G L I S F H V T L L D D S 7 14714 263 G L I S F H V T L L D D S N E 7 14715 281 A S P I F T D T V V F R V A P 7 14716 310 V C R V R N N T C F V D A V A 7 14717 323 V A E L A R K A G C K L T I C 7 14718 382 K R I L G P D F G Y V T R E P 7 14719 402 S G L D S F G N L E V S P P V 7 14720 403 Q L D S F G N L E V S P P V V 7 14721 406 S F G N L E V S P P V V A N G 7 14722 415 P V V A N G K E Y P L C R I L 7 14723 436 G S S G R R V T Q V V R D F L 7 14724 441 R V T Q V V R D F L H A Q K V 7 14725 444 Q V V R D F L H A Q K V Q P P 7 14726 449 F L H A Q K V Q P P V E L F V 7 14727 453 Q K V Q P P V E L F V D W L A 7 14728 463 V D W L A V G H V D E F L S F 7 14729 470 H V D E F L S F V P A P D G K 7 14730 480 A P D G K G F R M L L A S P G 7 14731 507 G H G R A L L F Q C V V D D E 7 14732 512 L L F Q G V V D D E Q V K T I 7 14733 514 F Q G V V D D E Q V K T I S I 7 14734 526 I S I N Q V L S N K D L I N Y 7 14735 528 I N Q V L S N K D L I N Y N K 7 14736 532 L S N K D L I N Y N K F V Q S 7 14737 538 I N Y N K F V Q S C I D W N K 7 14738 545 Q S C I D W N R E V B K R E L 7 14739 556 K R E L G L A E C D I I D I P 7 14740 559 L G L A E C D I I D I P Q L F 7 14741 564 C D I I D I P Q L F K T E R K 7 14742 582 A F F P D L V N M L V L G K H 7 14743 596 H L G I P K P F G P I I N G C 7 14744 603 F G P I I N G C C C L E E K V 7 14745 607 I N G C C C L E E K V R S L L 7 14746 611 C C L E E K V R S L L E P L G 7 14747 612 C L E E K V R S L L E P L G L 7 14748 621 L E P L G L H C T F I D D F T 7 14749 12 E H P T S A V C V A G V E T L 6 14750 14 P T S A V C V A G V E T L V D 6 14751 24 E T L V D I Y G S V P E G T E 6 14752 25 T L V D I Y G S V P E G T E N 6 14753 30 Y G S V P E G T E M F E V Y G 6 14754 39 M F E V Y G T P G V D I Y I S 6 14755 44 G T P G V D I Y I S P N M E R 6 14756 45 T P G V D I Y I S P N M E R G 6 14757 46 P G V D I Y I S P N M E R G R 6 14758 47 G V D I Y I S P N M E R G R E 6 14759 70 F D A T L E I I V V M N S P S 6 14760 75 E I I V V M N S P S N D L N D 6 14761 76 I I V V M N S P S N D L N D S 6 14762 79 V M N S P S N D L N D S H V Q 6 14763 81 N S P S N D L N D S H V Q I S 6 14764 86 D L N D S H V Q I S Y H S S H 6 14765 103 L P L A Y A V L Y L T C V D I 6 14766 111 Y L T C V D I S L D C D L N C 6 14767 112 L T C V D I S L D C D L N C E 6 14768 114 C V D I S L D C D L N C E G R 6 14769 117 I S L D C D L N C E G R Q D R 6 14770 132 N F V D K R Q W V W G P S G Y 6 14771 144 S G Y G C I L L V N C D R D D 6 14772 157 D D P S C D V Q D N C D Q H V 6 14773 160 S C D V Q D N C D Q H V H C L 6 14774 165 D N C D Q H V H C L Q D L E D 6 14775 170 H V H C L Q D L E D M S V M V 6 14776 182 V M V L R T Q G P A A L F D D 6 14777 187 T Q G P A A L F D D H K L V L 6 14778 196 D H K L V L H T S S Y D A K R 6 14779 198 K L V L H T S S Y D A K K A Q 6 14780 213 V F H I C G P E D V C E A Y R 6 14781 214 F H I C G P E D V C E A Y R H 6 14782 216 I C G P E D V C E A Y R H V L 6 14783 227 R H V L G Q D K V S Y E V P R 6 14784 242 L H G D E E R F F V E C L S F 6 14785 249 F F V E G L S F P D A G F T G 6 14786 251 V E G L S F P D A G F T G L I 6 14787 265 I S F H V T L L D D S N F D F 6 14788 268 H V T L L D D S N E D F S A S 6 14789 270 T L L D D S N E D F S A S P I 6 14790 271 L L D D S N F D F S A S P I F 6 14791 272 L D D S N E D F S A S P I F T 6 14792 278 D F S A S P I F T D T V V F R 6 14793 289 V V F R V A P W I N T P S T L 6 14794 291 F R V A P W I M T P S T L P P 6 14795 292 R V A P W I M T P S T L P P L 6 14796 297 I M T P S T L P P L E V Y V C 6 14797 311 C R V R N N T C F V D A V A E 6 14798 314 R N N T C F V D A V A E L A R 6 14799 327 A R K A G C K L T I C P Q A E 6 14800 328 R K A G C K L T I C P Q A E N 6 14801 329 K A G C K L T I C P Q A E N R 6 14802 330 A G C K L T I C P Q A E N R N 6 14803 342 N R N D R W I Q D E M E L G Y 6 14804 345 D R W I Q D E M E L G Y V Q A 6 14805 346 R W I Q D E M E L G Y V Q A P 6 14806 358 Q A P H K T L P V V F D S P R 6 14807 369 D S P R N G E L Q D F P Y K R 6 14808 370 S P R N G E L Q D F P Y K R I 6 14809 381 Y K R I L G P D F G Y V T R E 6 14810 392 V T R E P R D R S V S G L D S 6 14811 397 R D R S V S G L D S F G N L E 6 14812 401 V S G L D S F G N L E V S P P 6 14813 414 P P V V A N G K E Y P L G R I 6 14814 421 K E Y P L G R I L I G G N L P 6 14815 423 Y P L G R I L I G G N L P G S 6 14816 442 V T Q V V R D F L H A Q K V Q 6 14817 455 V Q P P V E L F V D W L A V G 6 14818 457 P P V E L F V D W L A V G H V 6 14819 475 L S F V P A P D G K G F R M L 6 14820 481 P D C K G F K N L L A S P C A 6 14821 485 G F R M L L A S P G A C F K L 6 14822 486 F R M L L A S P G A C F K L F 6 14823 487 R M L L A S P G A C F K L F Q 6 14824 498 K L F Q E K Q K C G H G R A L 6 14825 505 K C G H G R A L L F Q G V V D 6 14826 506 C G H G R A L L F Q G V V D D 6 14827 509 G R A L L F Q G V V D D E Q V 6 14828 515 Q C V V D D E Q V K T I S I N 6 14829 517 V V D D E Q V K T I S I N Q V 6 14830 523 V K T I S I N Q V L S N K D L 6 14831 529 N Q V L S N K D L I N Y N K F 6 14832 531 V L S N K D L I N Y N K F V Q 6 14833 541 N K F V Q S C I D W N R K V L 6 14834 552 R E V L K R E L G L A E C D I 6 14835 553 E V L K R E L G L A E C D I I 6 14836 555 L K R E L G L A E C D I I D I 6 14837 558 E L G L A E C D I I D I P Q L 6 14838 560 G L A E C D I I D I P Q L F K 6 14839 561 L A E C D I I D I P Q L F K T 6 14840 574 K T E R K K A T A F F P D L V 6 14841 586 D L V N M L V L G K H L C I P 6 14842 590 M L V L G K H L G I P K P F G 6 14843 598 G I P K P F C P I I N C C C C 6 14844 601 K P F G P I I N G C C C L E E 6 14845 604 G P I I N G C C C L E E K V R 6 14846 615 E K V R S L L E P L G L H C T 6 14847 617 V R S L L E P L G L H C T F I 6 14848 620 L L E P L G L H C T F I D D F 6 14849 623 P L G L H C T F I D D F T P Y 6 14850 628 C T F I D D F T P Y H M L H G 6 14851 638 H M L H G E V H C G T N V C R 6 14852 641 H G F V H C G T N V C R K P F 6 14853 647 G T N V C R K P F S F K W W N 6 14854 13 H P T S A V C V A G V E T L V 4 14855 41 E V Y G T P C V D I Y I S P N 4 14856 127 G R Q D R N F V D K R Q W V W 4 14857 2 S L Q R I V R V S L E H P T S 3 14858 16 S A V C V A G V E T L V D I Y 3 14859 57 E R G R E R A D T R R W R F D 3 14860 69 R F D A T L E I I V V M N S P 3 14861 175 Q D L E D M S V M V L R T Q G 3 14862 183 M V L R T Q G P A A L F D D H 3 14863 199 L V L H T S S Y D A K R A Q V 3 14864 206 Y D A K R A Q V F H I C G P E 3 14865 217 C G P E D V C E A Y R H V L G 3 14866 298 M T P S T L P P L E V Y V C R 3 14867 318 C F V D A V A E L A R K A G C 3 14868 362 K T L P V V F D S P R N G E L 3 14869 387 P D F G Y V T R E P R D R S V 3 14870 394 R E P R D R S V S G L D S F G 3 14871 435 P G S S G R R V T Q V V R D F 3 14872 437 S S G R R V T Q V V R D F L H 3 14873 438 S G R R V T Q V V R D F L H A 3 14874 461 L F V D W L A V G H V D E F L 3 14875 521 E Q V K T I S I N Q V L S N K 3 14876 577 R K K A T A F F P D L V N M L 3 14877 56 M E R G R E R A D T R R W R F 2 14878 66 R R W R F D A T L E I I V V M 2 14879 85 N D L N D S H V Q I S Y H S S 2 14880 118 S L D C D L N C E G R Q D R N 2 14881 121 C D L N C E G R Q D R N F V D 2 14882 156 R D D P S C D V Q D N C D Q H 2 14883 215 H I C G P E D V C E A Y R H V 2 14884 222 V C F A Y R H V L G Q D K V S 2 14885 228 H V L G Q D K V S Y E V P R L 2 14886 231 G Q D K V S Y E V P R L H G D 2 14887 238 E V P R L H G D E E R F F V E 2 14888 301 S T L P P L E V Y V C R V R N 2 14889 315 N N T C F V D A V A E L A R K 2 14890 336 I C P Q A E N R N D R W I Q D 2 14891 350 D E M E L G Y V Q A P H K T L 2 14892 352 M E L G Y V Q A P H K T L P V 2 14893 384 I L G P D F G Y V T R E P R D 2 14894 405 D S F G N L E V S P P V V A N 2 14895 417 V A N G K E Y P L G R I L I G 2 14896 4l8 A N G K E Y P L G R I L I G C 2 14897 430 I G G N L P G S S C R R V T Q 2 14898 445 V V R D F L H A Q K V Q P P V 2 14899 448 D F L H A Q K V Q P P V E L F 2 14900 464 D W L A V G H V D E F L S F V 2 14901 473 E F L S F V P A P D C K G F R 2 14902 477 F V P A P D G K G F R M L L A 2 14903 513 L F Q G V V D D E Q V K T I S 2 14904 518 V D D E Q V K T I S I N Q V L 2 14905 524 K T I S I N Q V L S N K D L I 2 14906 539 N Y N K F V Q S C I D W N R E 2 14907 567 I D I P Q L F K T E R K K A T 2 14908 568 D I P Q L F K T E R K K A T A 2 14909 642 G E V H C G T N V C R K P F S 2 14910 18 V C V A G V E T L V D I Y G S 1 14911 19 C V A G V E T L V D I Y G S V 1 14912 22 G V E T L V D I Y G S V P E G 1 14913 28 D I Y G S V P E G T E M F E V 1 14914 32 S V P E G T E M F E V Y G T P 1 14915 38 E M F E V Y G T P G V D I Y I 1 14916 si Y I S P N M E R G R E R A D T 1 14917 60 R E R A D T R R W R F D A T L 1 14918 64 D T R R W R F D A T L E I I V 1 14919 82 S P S N D L N D S H V Q I S Y 1 14920 105 L A Y A V L Y L T C V D I S L 1 14921 110 L Y L T C V D I S L D C D L N 1 14922 119 L D C D L N C E G R Q D R N F 1 14923 122 D L N C E G R Q D R N F V D K 1 14924 124 N C E G R Q D R N F V D K R Q 1 14925 126 E G R Q D R N F V D K R Q W V 1 14926 135 D K R Q W V W G P S G Y G G I 1 14927 139 W V W G P S G Y G G I L L V N 1 14928 140 V W G P S G Y G G I L L V N C 1 14929 141 W G P S G Y G G I L L V N C D 1 14930 142 G P S G Y G G I L L V N C D R 1 14931 153 N C D R D D P S C D V Q D N C 1 14932 158 D P S C D V Q D N C D Q H V H 1 14933 161 C D V Q D N C D Q H V H C L Q 1 14934 166 N C D Q H V H C L Q D L E D M 1 14935 167 C D Q H V H C L Q D L E D M S 1 14936 172 H C L Q D L E D M S V M V L R 1 14937 188 Q G P A A L F D D H K L V L H 1 14938 212 Q V F H I C G P E D V C E A Y 1 14939 218 G P E D V C E A Y R H V L G Q 1 14940 230 L G Q D K V S Y E V P R L H G 1 14941 241 R L H G D E S R F F V E G L S 1 14942 254 L S F P D A G F T G L I S F H 1 14943 257 P D A G F T G L I S F H V T L 1 14944 274 D S N E D F S A S P I F T D T 1 14945 275 S N E D F S A S P I F T D T V 1 14946 279 F S A S P I F T D T V V F R V 1 14947 280 S A S P I F T D T V V F R V A 1 14948 285 F T D T V V F R V A P W I M T 1 14949 296 W I M T P S T L P P L S V Y V 1 14950 308 V Y V C R V R N N T C F V D A 1 14951 324 A E L A R K A G C K L T I C P 1 14952 326 L A R K A G C K L T I C P Q A 1 14953 334 L T I C P Q A E N R N D R W I 1 14954 337 C P Q A E N R N D R W I Q D E 1 14955 347 W I Q D E H E L G Y V Q A P H 1 14956 356 Y V Q A P H K T L P V V F D S 1 14957 357 V Q A P H K T L P V V F D S P 1 14958 366 V V F D S P R N G E L Q D F P 1 14959 372 R N G E L Q D F P Y K R I L G 1 14960 390 G Y V T R E P R D R S V S G L 1 14961 396 P R D R S V S G L D S F G N L 1 14962 400 S V S G L D S F G N L E V S P 1 14963 412 V S P P V V A N G K E Y P L G 1 14964 450 L H A Q K V Q P P V E L F V D 1 14965 451 H A Q K V Q P P V E L F V D W 1 14966 454 K V Q P P V E L F V D W L A V 1 14967 466 L A V G H V D E F L S F V P A 1 14968 478 V P A P D G K G F R M L L A S 1 14969 488 M L L A S P G A C F K L F Q E 1 14970 489 L L A S P G A C F K L F Q E K 1 14971 501 Q E K Q K C G H G R A L L F Q 1 14972 503 K Q K C G H G R A L L F Q G V 1 14973 508 H G R A L L F Q G V V D D E Q 1 14974 543 F V Q S C I D W N R E V L K R 1 14975 546 S C I D W N R E V L K R E L G 1 14976 557 R E L G L A E C D I I D I P Q 1 14977 562 A E C D I I D I P Q L F K T E 1 14978 578 K K A T A F F P D L V N M L V 1 14979 579 K A T A F F P D L V N M L V L 1 14980 597 L G I P K P F G P I I N G C C 1 14981 599 I P K P F G P I I N G C C C L 1 14982 606 I I N G C C C L E E K V R S L 1 14983 609 G C C C L E E K V R S L L E P 1 14984 616 K V R S L L E P L G L H C T F 1 14985 626 L H C T F I D D F T P Y H M L 1 14986 639 M L H G E V H C G T N V C R K 1 14987 640 L H G E V H C G T N V C R K P 1 14988 648 T N V C R K P F S F K W W N M 1 14989 184P1E2 v.2: HLA Peptide Scoring Results DRB1 1101 15-mers SYF PE ITIII 4 V A P W I M T P S T L A P L E 17 14990 15 A P L E V Y V C R V R N N T C 16 14991 11 P S T L A P L E V Y V C R V R 13 14992 1 V F R V A P W I M T P S T L A 12 14993 5 A P W I M T P S T L A P L E V 12 14994 14 L A P L E V Y V C R V R N N T 11 14995 6 P W I M T P S T L A P L E V Y 8 14996 13 T L A P L E V Y V C R V R N N 8 14997 2 F R V A P W I M T P S T L A P 6 14998 3 R V A P W I M T P S T L A P L 6 14999 5 I M T P S T L A P L E V Y V C 6 15000 9 M T P S T L A P L F V Y V C R 3 15001 12 S T L A P L E V Y V C R V R N 2 15002 7 W I M T P S T L A P L E V Y V 1 15003 184P1E2 v.3: HLA Peptide Scoring Results DRB1 1101 15-mers SYFPEITHI 9 F L S F V P V P D G K G F R M 23 15004 7 D E F L S F V P V P D G K G F 18 15005 3 V G H V D E F L S F V P V P D 13 15006 6 V D E F L S F V P V P D G K G 12 15007 14 P V P D G K G F R M L L A S P 9 15008 5 H V D E F L S F V P V P D G K 8 15009 11 S F V P V P D G K G F R M L L 8 15010 12 F V P V P D G K G F R M L L A 8 15011 10 L S F V P V P D G K G F R M L 7 15012 15 V P D G K G F R M L L A S P G 7 15013 4 G H V D E F L S F V P V P D G 6 15014 8 E F L S F V P V P D G K G F R 4 15015 1 L A V G H V D E F L S F V P V 1 15016 13 V P V P D G K G F R M L L A S 1 15017

TABLE LII Search Peptides 184P1E2 v.1: For all 184P1E2 v.1 - nonamers. decamers and 15-mers   1 MSLQRIVRVS LEHPTSAVCV AGVETLVDIY GSVPEGTEMF EVYGTPGVDI YISPNMERGR  61 ERADTRRWRF DATLEIIVVM NSPSNDLNDS HVQISYHSSH EPLP L AYAVL YLTCVDISLD 121 CDLNCEGRQD RNFVDKRQWV WGPSGYGGIL LVNCDRDDPS CDVQDNCDQH VHCLQDLEDM 181 SVMVLRTQGP AALFDDHKLV LHTSSYDAKR AQVFHICGPE DVCEAYRHVL GQDKVSYEVP 241 RLHGDEERFF VEGLSFPDAG FTGLISFHVT LLDDSNEDFS ASPIFTDTVV FRVAPWIMTP 301 STL P PLEVYV CRVRNNTCFV DAVAELARKA GCKLTICPQA ENRNDRWIQD EMELGYVQAP 361 HKTLPVVFDS PRNGELQDFP YKRILGPDFG YVTREPRDRS VSGLDSFGNL EVSPPVVANG 421 KEYPLGRILI GGNLPGSSGR RVTQVVRDFL HAQKVQPPVE LFVDWLAVGH VDEFLSFVP A 481 PDGKGFRMLL ASPGACFKLF QEKQKCGHGR ALLFQGVVDD EQVKTISINQ VLSNKDLINY 541 NKFVQSCIDW NREVLKRELG LAECDIIDIP QLFKTERKKA TAFFPDLVNM LVLGKHLGIP 601 KPFGPIINGC CCLEEKVRSL LE P LGLHCTF IDDFTPYHML HGEVHCGTNV CRKPFSFKWW 661 NMVP (aa. 1-664) 184P1E2 v.2: 184P1E2 v.2 nonamers WIMTPSTL A PLEVYVCR (aa. 296-312) 184P1E2 v.2 decarners PWIMTPSTL A PLEVYVCRV (aa. 295-313) 184P1E2 v.2 1 5-mers VFRVAPWIMTPSTL A PLEVYVCRVRNNTC (aa. 290-318) 184P1E2 v.3: 184P1F2 v.3 nonamers DEFLSFVP V PDGKGFRM (aa. 472-488) 184P1E2 v.3 decamers VDEFLSFVP V PDGKGFRML (aa. 471-489) 184P1E2 v.3 15-mers LAVGHVDEFLSFVP V PDGKGFRMLLASPG (aa. 466-494)

TABLE LIII Clustal Alignment of the three 184P1E2 variants Showing SNP Modifications. v.1 MSLQRIVRVSLEHPTSAVCVAGVETLVDIYGSVPEGTEMFEVYGTPGVDIYISPNMERGR v.2 MSLQRIVRVSLEHPTSAVCVAGVETLVDIYGSVPEGTEMFEVYGTPGVDIYISPNMERGR v.3 MSLQRIVRVSLEHPTSAVCVAGVETLVDIYGSVPEGTEMFEVYGTPGVDIYISPNMERGR ************************************************************ v.1 ERADTRRWRFDATLEIIVVMNSPSNDLNDSHVQISYHSSHEPLPLAYAVLYLTCVDISLD v.2 ERADTRRWRFDATLEIIVVMNSPSNDLNDSHVQISYHSSHEPLPLAYAVLYLTCVDISLD v.3 ERADTRRWRFDATLEIIVVMNSPSNDLNDSHVQISYHSSHEPLPLAYAVLYLTCVDISLD ************************************************************ v.1 CDLNCEGRQDRNFVDKRQWVWGPSGYGGILLVNCDRDDPSCDVQDNCDQHVHCLQDLEDM v.2 CDLNCEGRQDRNFVDKRQWVWGPSGYGGILLVNCDRDDPSCDVQDNCDQHVHCLQDLEDM v.3 CDLNCEGRQDRNFVDKRQWVWGPSGYGGILLVNCDRDDPSCDVQDNCDQHVHCLQDLEDM ************************************************************ v.1 SVMVLRTQGPAALFDDHKLVLHTSSYDAKRAQVFHICGPEDVCEAYRHVLGQDKVSYEVP v.2 SVMVLRTQGPAALFDDHKLVLHTSSYDAKRAQVFHICGPEDVCEAYRHVLGQDKVSYEVP v.3 SVMVLRTQGPAALFDDHKLVLHTSSYDAKRAQVFHICGPEDVCEAYRHVLGQDKVSYEVP ************************************************************ v.1 RLHGDEERFFVEGLSFPDAGFTCLISFHVTLLDDSNEDFSASPIFTDTVVFRVAPWIMTP v.2 RLHGDEERFFVEGLSFPDAGFTCLISFHVTLLDDSNEDFSASPIFTDTVVFRVAPWIMTP v.3 RLHGDEERFFVEGLSFPDAGFTCLISFHVTLLDDSNEDFSASPIFTDTVVFRVAPWIMTP ************************************************************ v.1 STL P PLEVYVCRVRNNTCFVDAVAELARKAGCKLTICPQAENRNDRWIQDEMELGYVQAP v.2 STL A PLEVYVCRVRNNTCFVDAVAELARKAGCKLTICPQAENRNDRWIQDEMELGYVQAP v.3 STL P PLEVYVCRVRNNTCFVDAVAELARKAGCKLTICPQAENRNDRWIQDEMELGYVQAP ***.******************************************************** v.1 HKTLPVVFDSPRNGELQDFPYKRILGPDFCYVTREPRDRSVSGLDSFGNLEVSPPVVANG v.2 HKTLPVVFDSPRNGELQDFPYKRILGPDFCYVTREPRDRSVSGLDSFGNLEVSPPVVANG v.3 HKTLPVVFDSPRNGELQDFPYKRILGPDFCYVTREPRDRSVSGLDSFGNLEVSPPVVANG ************************************************************ v.1 KEYPLGRILIGGNLPGSSGRRVTQVVRDFLHAQKVQPPVELFVDWLAVGHVDEFLSFVP A v.2 KEYPLGRILIGGNLPGSSGRRVTQVVRDFLHAQKVQPPVELFVDWLAVGHVDEFLSFVP A v.3 KEYPLGRILIGGNLPGSSGRRVTQVVRDFLHAQKVQPPVELFVDWLAVGHVDEFLSFVP V ***********************************************************. v.1 PDGKGFRMLLASPGACFKLFQEKQKCGHGRALLFQGVVDDEQVKTISINQVLSNKDLINY v.2 PDGKGFRMLLASPGACFKLFQEKQKCGHGRALLFQGVVDDEQVKTISINQVLSNKDLINY v.3 PDGKGFRMLLASPGACFKLFQEKQKCGHGRALLFQGVVDDEQVKTISINQVLSNKDLINY ************************************************************ v.1 NKFVQSCIDWNREVLKRELGLAECDIIDIPQLFKTERKKATAFFPDLVNMLVLGKHLGIP v.2 NKFVQSCIDWNREVLKRELGLAECDIIDIPQLFKTERKKATAFFPDLVNMLVLGKHLGIP v.3 NKFVQSCIDWNREVLKRELGLAECDIIDIPQLFKTERKKATAFFPDLVNMLVLGKHLGIP ************************************************************ v.1 KPFGPIINGCCCLEEKVRSLLEPLGLHCTFIDDFTPYHMLHGEVHCGTNVCRKPFSFKWW v.2 KPFGPIINGCCCLEEKVRSLLEPLGLHCTFIDDFTPYHMLHGEVHCGTNVCRKPFSFKWW v.3 KPFGPIINGCCCLEEKVRSLLEPLGLHCTFIDDFTPYHMLHGEVHCGTNVCRKPFSFKWW ************************************************************ v.1 NMVP v.2 NMVP v.3 NMVP **** 

1. A method for detecting the presence of a protein in a biological sample comprising the steps of: contacting the biological sample with an antibody or fragment thereof which specifically binds to the protein, wherein the protein comprises the amino acid sequence of SEQ ID NO:5 or 7 and, determining the presence or absence of a complex of the antibody or fragment thereof and the protein in the biological sample compared to a corresponding normal control sample.
 2. The method of claim 1, wherein the antibody comprises a polyclonal antibody.
 3. The method of claim 1, wherein the antibody comprises a monoclonal antibody.
 4. The method of claim 1, wherein the sample is taken from a patient who has or who is suspected of having cancer.
 5. The method of claim 4 wherein the cancer is a bladder, kidney, or lung cancer. 